-
1
-
-
84874194072
-
DNA methylation: Roles in mammalian development
-
Smith, Z. D. & Meissner, A. DNA methylation: Roles in mammalian development. Nat. Rev. Genet. 14, 204-220 (2013).
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 204-220
-
-
Smith, Z.D.1
Meissner, A.2
-
3
-
-
0036144048
-
DNA methylation patterns and epigenetic memory
-
Bird, A. DNA methylation patterns and epigenetic memory. Genes Dev. 16, 6-21 (2002).
-
(2002)
Genes Dev.
, vol.16
, pp. 6-21
-
-
Bird, A.1
-
4
-
-
0033615717
-
DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development
-
Okano, M., Bell, D. W., Haber, D. A. & Li, E. DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell 99, 247-257 (1999).
-
(1999)
Cell
, vol.99
, pp. 247-257
-
-
Okano, M.1
Bell, D.W.2
Haber, D.A.3
Li, E.4
-
5
-
-
9144256125
-
The Dnmt1 DNA-(cytosine-C5)-methyltransferase methylates DNA processively with high preference for hemimethylated target sites
-
Hermann, A., Goyal, R. & Jeltsch, A. The Dnmt1 DNA- (cytosine-C5)-methyltransferase methylates DNA processively with high preference for hemimethylated target sites. J. Biol. Chem. 279, 48350-48359 (2004).
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 48350-48359
-
-
Hermann, A.1
Goyal, R.2
Jeltsch, A.3
-
6
-
-
34648833002
-
UHRF1 plays a role in maintaining DNA methylation in mammalian cells
-
Bostick, M. et al. UHRF1 plays a role in maintaining DNA methylation in mammalian cells. Science 317, 1760-1764 (2007).
-
(2007)
Science
, vol.317
, pp. 1760-1764
-
-
Bostick, M.1
-
7
-
-
36849072573
-
The SRA protein Np95 mediates epigenetic inheritance by recruiting Dnmt1 to methylated DNA
-
Sharif, J. et al. The SRA protein Np95 mediates epigenetic inheritance by recruiting Dnmt1 to methylated DNA. Nature 450, 908-912 (2007).
-
(2007)
Nature
, vol.450
, pp. 908-912
-
-
Sharif, J.1
-
8
-
-
0016439429
-
DNA modification mechanisms and gene activity during development
-
Holliday, R. & Pugh, J. E. DNA modification mechanisms and gene activity during development. Science 187, 226-232 (1975).
-
(1975)
Science
, vol.187
, pp. 226-232
-
-
Holliday, R.1
Pugh, J.E.2
-
9
-
-
0016692220
-
X inactivation, differentiation, and DNA methylation
-
Riggs, A. D. X inactivation, differentiation, and DNA methylation. Cytogenet. Cell Genet. 14, 9-25 (1975).
-
(1975)
Cytogenet. Cell Genet.
, vol.14
, pp. 9-25
-
-
Riggs, A.D.1
-
10
-
-
77956095231
-
Active DNA demethylation: Many roads lead to Rome
-
Wu, S. C. & Zhang, Y. Active DNA demethylation: Many roads lead to Rome. Nat. Rev. Mol. Cell Biol. 11, 607-620 (2010).
-
(2010)
Nat. Rev. Mol. Cell Biol.
, vol.11
, pp. 607-620
-
-
Wu, S.C.1
Zhang, Y.2
-
11
-
-
85000765395
-
DNA demethylation pathways: Additional players and regulators
-
Bochtler, M., Kolano, A. & Xu, G. L. DNA demethylation pathways: Additional players and regulators. Bioessays 39, 1-13 (2017).
-
(2017)
Bioessays
, vol.39
, pp. 1-13
-
-
Bochtler, M.1
Kolano, A.2
Xu, G.L.3
-
12
-
-
84892763878
-
Reversing DNA methylation: Mechanisms, genomics, and biological functions
-
Wu, H. & Zhang, Y. Reversing DNA methylation: Mechanisms, genomics, and biological functions. Cell 156, 45-68 (2014).
-
(2014)
Cell
, vol.156
, pp. 45-68
-
-
Wu, H.1
Zhang, Y.2
-
13
-
-
73349104113
-
Active DNA demethylation mediated by DNA glycosylases
-
Zhu, J. K. Active DNA demethylation mediated by DNA glycosylases. Annu. Rev. Genet. 43, 143-166 (2009).
-
(2009)
Annu. Rev. Genet.
, vol.43
, pp. 143-166
-
-
Zhu, J.K.1
-
14
-
-
0034598784
-
Demethylation of the zygotic paternal genome
-
Mayer, W., Niveleau, A., Walter, J., Fundele, R. & Haaf, T. Demethylation of the zygotic paternal genome. Nature 403, 501-502 (2000).
-
(2000)
Nature
, vol.403
, pp. 501-502
-
-
Mayer, W.1
Niveleau, A.2
Walter, J.3
Fundele, R.4
Haaf, T.5
-
15
-
-
0034176639
-
Active demethylation of the paternal genome in the mouse zygote
-
Oswald, J. et al. Active demethylation of the paternal genome in the mouse zygote. Curr. Biol. 10, 475-478 (2000).
-
(2000)
Curr. Biol.
, vol.10
, pp. 475-478
-
-
Oswald, J.1
-
16
-
-
66149123748
-
The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain
-
This paper shows convincingly for the first time that 5hmC is highly abundant in the brain
-
Kriaucionis, S. & Heintz, N. The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain. Science 324, 929-930 (2009). This paper shows convincingly for the first time that 5hmC is highly abundant in the brain.
-
(2009)
Science
, vol.324
, pp. 929-930
-
-
Kriaucionis, S.1
Heintz, N.2
-
17
-
-
66149146320
-
Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1
-
This study reveals that TET1 is capable of converting 5mC to 5hmC
-
Tahiliani, M. et al. Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science 324, 930-935 (2009). This study reveals that TET1 is capable of converting 5mC to 5hmC.
-
(2009)
Science
, vol.324
, pp. 930-935
-
-
Tahiliani, M.1
-
18
-
-
0037350661
-
TET1, a member of a novel protein family, is fused to MLL in acute myeloid leukemia containing the t(10;11)(q22;q23
-
Lorsbach, R. B. et al. TET1, a member of a novel protein family, is fused to MLL in acute myeloid leukemia containing the t(10;11)(q22;q23). Leukemia 17, 637-641 (2003).
-
(2003)
Leukemia
, vol.17
, pp. 637-641
-
-
Lorsbach, R.B.1
-
19
-
-
0037099537
-
LCX, leukemia-associated protein with a CXXC domain, is fused to MLL in acute myeloid leukemia with trilineage dysplasia having t(10;11)(q22;q23
-
Ono, R. et al. LCX, leukemia-associated protein with a CXXC domain, is fused to MLL in acute myeloid leukemia with trilineage dysplasia having t(10;11)(q22;q23). Cancer Res. 62, 4075-4080 (2002).
-
(2002)
Cancer Res.
, vol.62
, pp. 4075-4080
-
-
Ono, R.1
-
20
-
-
34249845812
-
The protein that binds to DNA base J in trypanosomatids has features of a thymidine hydroxylase
-
Yu, Z. et al. The protein that binds to DNA base J in trypanosomatids has features of a thymidine hydroxylase. Nucleic Acids Res. 35, 2107-2115 (2007).
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 2107-2115
-
-
Yu, Z.1
-
21
-
-
53849113697
-
Base J: Discovery, biosyn thesis, and possible functions
-
Borst, P. & Sabatini, R. Base J: Discovery, biosynthesis, and possible functions. Annu. Rev. Microbiol. 62, 235-251 (2008).
-
(2008)
Annu. Rev. Microbiol.
, vol.62
, pp. 235-251
-
-
Borst, P.1
Sabatini, R.2
-
22
-
-
63249106600
-
JBP1 and JBP2 are two distinct thymidine hydroxylases involved in J biosynthesis in genomic DNA of African trypanosomes
-
Cliffe, L. J. et al. JBP1 and JBP2 are two distinct thymidine hydroxylases involved in J biosynthesis in genomic DNA of African trypanosomes. Nucleic Acids Res. 37, 1452-1462 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 1452-1462
-
-
Cliffe, L.J.1
-
23
-
-
77956189495
-
Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification
-
This paper demonstrates that all three mouse TET proteins are capable of oxidizing 5mC to 5hmC
-
Ito, S. et al. Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification. Nature 466, 1129-1133 (2010). This paper demonstrates that all three mouse TET proteins are capable of oxidizing 5mC to 5hmC.
-
(2010)
Nature
, vol.466
, pp. 1129-1133
-
-
Ito, S.1
-
24
-
-
80052495940
-
Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA
-
This work shows that TET converts 5mC and 5hmC to 5caC, which can be excised by TDG. The study also shows that TDG depletion results in 5caC accumulation in mouse ESCs
-
He, Y. F. et al. Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science 333, 1303-1307 (2011). This work shows that TET converts 5mC and 5hmC to 5caC, which can be excised by TDG. The study also shows that TDG depletion results in 5caC accumulation in mouse ESCs.
-
(2011)
Science
, vol.333
, pp. 1303-1307
-
-
He, Y.F.1
-
25
-
-
80052461558
-
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
-
This paper shows that TET can convert 5mC to 5fC and 5caC, and that 5fC and 5caC are present in mouse ESCs and organs
-
Ito, S. et al. Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science 333, 1300-1303 (2011). This paper shows that TET can convert 5mC to 5fC and 5caC, and that 5fC and 5caC are present in mouse ESCs and organs.
-
(2011)
Science
, vol.333
, pp. 1300-1303
-
-
Ito, S.1
-
26
-
-
19744376088
-
Genes of the thymidine salvage pathway: Thymine-7-hydroxylase from a Rhodotorula glutinis cDNA library and iso-orotate decarboxylase from Neurospora crassa
-
Smiley, J. A., Kundracik, M., Landfried, D. A., Barnes, V. R. Sr & Axhemi, A. A. Genes of the thymidine salvage pathway: Thymine-7-hydroxylase from a Rhodotorula glutinis cDNA library and iso-orotate decarboxylase from Neurospora crassa. Biochim. Biophys. Acta 1723, 256-264 (2005).
-
(2005)
Biochim. Biophys. Acta
, vol.1723
, pp. 256-264
-
-
Smiley, J.A.1
Kundracik, M.2
Landfried, D.A.3
Barnes, V.R.4
Axhemi, A.A.5
-
27
-
-
80053917872
-
Thymine DNA glycosylase can rapidly excise 5-formylcytosine and 5-carboxylcytosine: Potential implications for active demethylation of CpG sites
-
These authors show that TDG is capable of excising both 5fC and 5caC
-
Maiti, A. & Drohat, A. C. Thymine DNA glycosylase can rapidly excise 5-formylcytosine and 5-carboxylcytosine: Potential implications for active demethylation of CpG sites. J. Biol. Chem. 286, 35334-35338 (2011). These authors show that TDG is capable of excising both 5fC and 5caC.
-
(2011)
J. Biol. Chem
, vol.286
, pp. 35334-35338
-
-
Maiti, A.1
Drohat, A.C.2
-
28
-
-
84960155228
-
Biochemical reconstitution of TET1-TDG-BER-dependent active DNA demethylation reveals a highly coordinated mechanism
-
Using in vitro biochemical reconstruction, this paper demonstrates that TET-TDG-BER is sufficient to convert 5mC to unmodified cytosine. It also shows that TET, TDG and BER are tightly coupled to minimize the possibility of DSB formation during demethylation
-
Weber, A. R. et al. Biochemical reconstitution of TET1-TDG-BER-dependent active DNA demethylation reveals a highly coordinated mechanism. Nat. Commun. 7, 10806 (2016). Using in vitro biochemical reconstruction, this paper demonstrates that TET-TDG-BER is sufficient to convert 5mC to unmodified cytosine. It also shows that TET, TDG and BER are tightly coupled to minimize the possibility of DSB formation during demethylation.
-
(2016)
Nat. Commun.
, vol.7
, pp. 10806
-
-
Weber, A.R.1
-
29
-
-
84878260646
-
TETonic shift: Biological roles of TET proteins in DNA demethylation and transcription
-
Pastor, W. A., Aravind, L. & Rao, A. TETonic shift: Biological roles of TET proteins in DNA demethylation and transcription. Nat. Rev. Mol. Cell Biol. 14, 341-356 (2013).
-
(2013)
Nat. Rev. Mol. Cell Biol.
, vol.14
, pp. 341-356
-
-
Pastor, W.A.1
Aravind, L.2
Rao, A.3
-
30
-
-
84894560490
-
Crystal structure of TET2-DNA complex: Insight into TET-mediated 5mC oxidation
-
This work describes the crystal structure of TET2-5mC, providing insights into the interaction between TET2 and methylated DNA
-
Hu, L. et al. Crystal structure of TET2-DNA complex: Insight into TET-mediated 5mC oxidation. Cell 155, 1545-1555 (2013). This work describes the crystal structure of TET2-5mC, providing insights into the interaction between TET2 and methylated DNA.
-
(2013)
Cell
, vol.155
, pp. 1545-1555
-
-
Hu, L.1
-
31
-
-
78649825211
-
TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine
-
Zhang, H. et al. TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine. Cell Res. 20, 1390-1393 (2010).
-
(2010)
Cell Res.
, vol.20
, pp. 1390-1393
-
-
Zhang, H.1
-
32
-
-
84877582944
-
Modulation of TET2 expression and 5-methylcytosine oxidation by the CXXC domain protein IDAX
-
Ko, M. et al. Modulation of TET2 expression and 5-methylcytosine oxidation by the CXXC domain protein IDAX. Nature 497, 122-126 (2013).
-
(2013)
Nature
, vol.497
, pp. 122-126
-
-
Ko, M.1
-
33
-
-
85007467166
-
Isoform switch of TET1 regulates DNA demethylation and mouse development
-
This paper describes two different isoforms of mouse TET1 and their distinct expression pattern and activity
-
Zhang, W. et al. Isoform switch of TET1 regulates DNA demethylation and mouse development. Mol. Cell 64, 1062-1073 (2016). This paper describes two different isoforms of mouse TET1 and their distinct expression pattern and activity.
-
(2016)
Mol. Cell
, vol.64
, pp. 1062-1073
-
-
Zhang, W.1
-
34
-
-
84877778628
-
Intrinsic and extrinsic connections of Tet3 dioxygenase with CXXC zinc finger modules
-
Liu, N. et al. Intrinsic and extrinsic connections of Tet3 dioxygenase with CXXC zinc finger modules. PLoS ONE 8, e62755 (2013).
-
(2013)
PLoS ONE
, vol.8
, pp. e62755
-
-
Liu, N.1
-
35
-
-
84953313336
-
Tet3 reads 5-carboxylcytosine through its CXXC domain and is a potential guardian against neurodegeneration
-
Jin, S. G. et al. Tet3 reads 5-carboxylcytosine through its CXXC domain and is a potential guardian against neurodegeneration. Cell Rep. 14, 493-505 (2016).
-
(2016)
Cell Rep.
, vol.14
, pp. 493-505
-
-
Jin, S.G.1
-
36
-
-
84894257068
-
Structure of a Naegleria Tet-like dioxygenase in complex with 5-methylcytosine DNA
-
Hashimoto, H. et al. Structure of a Naegleria Tet-like dioxygenase in complex with 5-methylcytosine DNA. Nature 506, 391-395 (2014).
-
(2014)
Nature
, vol.506
, pp. 391-395
-
-
Hashimoto, H.1
-
37
-
-
84946217906
-
Structural insight into substrate preference for TET-mediated oxidation
-
Hu, L. et al. Structural insight into substrate preference for TET-mediated oxidation. Nature 527, 118-122 (2015).
-
(2015)
Nature
, vol.527
, pp. 118-122
-
-
Hu, L.1
-
38
-
-
85001976357
-
Mutations along a TET2 active site scaffold stall oxidation at 5-hydroxymethylcytosine
-
Liu, M. Y. et al. Mutations along a TET2 active site scaffold stall oxidation at 5-hydroxymethylcytosine. Nat. Chem. Biol. 13, 181-187 (2016).
-
(2016)
Nat. Chem. Biol.
, vol.13
, pp. 181-187
-
-
Liu, M.Y.1
-
39
-
-
84956811348
-
Tet2 catalyzes stepwise 5-methylcytosine oxidation by an iterative and de novo mechanism
-
Crawford, D. J. et al. Tet2 catalyzes stepwise 5-methylcytosine oxidation by an iterative and de novo mechanism. J. Am. Chem. Soc. 138, 730-733 (2016).
-
(2016)
J. Am. Chem. Soc.
, vol.138
, pp. 730-733
-
-
Crawford, D.J.1
-
40
-
-
84982672449
-
Distributive processing by the iron(II)/alpha-ketoglutarate-dependent catalytic domains of the TET enzymes is consistent with epigenetic roles for oxidized 5-methylcytosine bases
-
Tamanaha, E., Guan, S., Marks, K. & Saleh, L. Distributive processing by the iron(II)/alpha-ketoglutarate-dependent catalytic domains of the TET enzymes is consistent with epigenetic roles for oxidized 5-methylcytosine bases. J. Am. Chem. Soc. 138, 9345-9348 (2016).
-
(2016)
J. Am. Chem. Soc.
, vol.138
, pp. 9345-9348
-
-
Tamanaha, E.1
Guan, S.2
Marks, K.3
Saleh, L.4
-
41
-
-
84923999745
-
Single-base resolution analysis of active DNA demethylation using methylase-assisted bisulfite sequencing
-
This study is the first to assess the genetic processivity of TET by comparing 5hmC profiles with 5fC/5caC profiles at base resolution
-
Wu, H., Wu, X., Shen, L. & Zhang, Y. Single-base resolution analysis of active DNA demethylation using methylase-assisted bisulfite sequencing. Nat. Biotechnol. 32, 1231-1240 (2014). This study is the first to assess the genetic processivity of TET by comparing 5hmC profiles with 5fC/5caC profiles at base resolution.
-
(2014)
Nat. Biotechnol.
, vol.32
, pp. 1231-1240
-
-
Wu, H.1
Wu, X.2
Shen, L.3
Zhang, Y.4
-
42
-
-
84946478306
-
Bisulfite-free, base-resolution analysis of 5-formylcytosine at the genome scale
-
Xia, B. et al. Bisulfite-free, base-resolution analysis of 5-formylcytosine at the genome scale. Nat. Methods 12, 1047-1050 (2015).
-
(2015)
Nat. Methods
, vol.12
, pp. 1047-1050
-
-
Xia, B.1
-
43
-
-
84876946045
-
Genome-wide analysis reveals TET- And TDG-dependent 5-methylcytosine oxidation dynamics
-
Shen, L. et al. Genome-wide analysis reveals TET- And TDG-dependent 5-methylcytosine oxidation dynamics. Cell 153, 692-706 (2013).
-
(2013)
Cell
, vol.153
, pp. 692-706
-
-
Shen, L.1
-
44
-
-
84923952609
-
A sensitive approach to map genome-wide 5-hydroxymethylcytosine and 5-formylcytosine at single-base resolution
-
Sun, Z. et al. A sensitive approach to map genome-wide 5-hydroxymethylcytosine and 5-formylcytosine at single-base resolution. Mol. Cell 57, 750-761 (2015).
-
(2015)
Mol. Cell
, vol.57
, pp. 750-761
-
-
Sun, Z.1
-
45
-
-
84886860116
-
TET enzymes, TDG and the dynamics of DNA demethylation
-
Kohli, R. M. & Zhang, Y. TET enzymes, TDG and the dynamics of DNA demethylation. Nature 502, 472-479 (2013).
-
(2013)
Nature
, vol.502
, pp. 472-479
-
-
Kohli, R.M.1
Zhang, Y.2
-
46
-
-
84869044795
-
Excision of 5-hydroxymethyluracil and 5-carboxylcytosine by the thymine DNA glycosylase domain: Its structural basis and implications for active DNA demethylation
-
Hashimoto, H., Hong, S., Bhagwat, A. S., Zhang, X. & Cheng, X. Excision of 5-hydroxymethyluracil and 5-carboxylcytosine by the thymine DNA glycosylase domain: Its structural basis and implications for active DNA demethylation. Nucleic Acids Res. 40, 10203-10214 (2012).
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 10203-10214
-
-
Hashimoto, H.1
Hong, S.2
Bhagwat, A.S.3
Zhang, X.4
Cheng, X.5
-
47
-
-
84862776719
-
Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA
-
Zhang, L. et al. Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA. Nat. Chem. Biol. 8, 328-330 (2012).
-
(2012)
Nat. Chem. Biol.
, vol.8
, pp. 328-330
-
-
Zhang, L.1
-
48
-
-
33749171576
-
Specificity of human thymine DNA glycosylase depends on N-glycosidic bond stability
-
Bennett, M. T. et al. Specificity of human thymine DNA glycosylase depends on N-glycosidic bond stability. J. Am. Chem. Soc. 128, 12510-12519 (2006).
-
(2006)
J. Am. Chem. Soc.
, vol.128
, pp. 12510-12519
-
-
Bennett, M.T.1
-
49
-
-
84959387100
-
Thymine DNA glycosylase exhibits negligible affinity for nucleobases that it removes from DNA
-
Malik, S. S., Coey, C. T., Varney, K. M., Pozharski, E. & Drohat, A. C. Thymine DNA glycosylase exhibits negligible affinity for nucleobases that it removes from DNA. Nucleic Acids Res. 43, 9541-9552 (2015).
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. 9541-9552
-
-
Malik, S.S.1
Coey, C.T.2
Varney, K.M.3
Pozharski, E.4
Drohat, A.C.5
-
50
-
-
84886468317
-
Divergent mechanisms for enzymatic excision of 5-formylcytosine and 5-carboxylcytosine from DNA
-
Maiti, A., Michelson, A. Z., Armwood, C. J., Lee, J. K. & Drohat, A. C. Divergent mechanisms for enzymatic excision of 5-formylcytosine and 5-carboxylcytosine from DNA. J. Am. Chem. Soc. 135, 15813-15822 (2013).
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 15813-15822
-
-
Maiti, A.1
Michelson, A.Z.2
Armwood, C.J.3
Lee, J.K.4
Drohat, A.C.5
-
51
-
-
84956840247
-
Neil DNA glycosylases promote substrate turnover by Tdg during DNA demethylation
-
Schomacher, L. et al. Neil DNA glycosylases promote substrate turnover by Tdg during DNA demethylation. Nat. Struct. Mol. Biol. 23, 116-124 (2016).
-
(2016)
Nat. Struct. Mol. Biol.
, vol.23
, pp. 116-124
-
-
Schomacher, L.1
-
52
-
-
85010285194
-
Acetylation enhances TET2 function in protecting against abnormal DNA methylation during oxidative stress
-
Zhang, Y. W. et al. Acetylation enhances TET2 function in protecting against abnormal DNA methylation during oxidative stress. Mol. Cell 65, 323-335 (2017).
-
(2017)
Mol. Cell
, vol.65
, pp. 323-335
-
-
Zhang, Y.W.1
-
53
-
-
84905582980
-
TET-mediated oxidation of methylcytosine causes TDG or NEIL glycosylase dependent gene reactivation
-
Muller, U., Bauer, C., Siegl, M., Rottach, A. & Leonhardt, H. TET-mediated oxidation of methylcytosine causes TDG or NEIL glycosylase dependent gene reactivation. Nucleic Acids Res. 42, 8592-8604 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 8592-8604
-
-
Muller, U.1
Bauer, C.2
Siegl, M.3
Rottach, A.4
Leonhardt, H.5
-
54
-
-
84860221291
-
Recognition and potential mechanisms for replication and erasure of cytosine hydroxymethylation
-
Hashimoto, H. et al. Recognition and potential mechanisms for replication and erasure of cytosine hydroxymethylation. Nucleic Acids Res. 40, 4841-4849 (2012).
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 4841-4849
-
-
Hashimoto, H.1
-
55
-
-
84892415010
-
Cell cycle-dependent turnover of 5-hydroxymethyl cytosine in mouse embryonic stem cells
-
Otani, J. et al. Cell cycle-dependent turnover of 5-hydroxymethyl cytosine in mouse embryonic stem cells. PLoS ONE 8, e82961 (2013).
-
(2013)
PLoS ONE
, vol.8
, pp. e82961
-
-
Otani, J.1
-
56
-
-
79959431845
-
Recognition of 5-hydroxymethylcytosine by the Uhrf1 SRA domain
-
Frauer, C. et al. Recognition of 5-hydroxymethylcytosine by the Uhrf1 SRA domain. PLoS ONE 6, e21306 (2011).
-
(2011)
PLoS ONE
, vol.6
, pp. e21306
-
-
Frauer, C.1
-
57
-
-
84901828175
-
Effects of Tet-induced oxidation products of 5-methylcytosine on Dnmt1- And DNMT3a-mediated cytosine methylation
-
Ji, D., Lin, K., Song, J. & Wang, Y. Effects of Tet-induced oxidation products of 5-methylcytosine on Dnmt1- And DNMT3a-mediated cytosine methylation. Mol. Biosyst. 10, 1749-1752 (2014).
-
(2014)
Mol. Biosyst.
, vol.10
, pp. 1749-1752
-
-
Ji, D.1
Lin, K.2
Song, J.3
Wang, Y.4
-
58
-
-
84925762489
-
TET family proteins: Oxidation activity, interacting molecules, and functions in diseases
-
Lu, X., Zhao, B. S. & He, C. TET family proteins: Oxidation activity, interacting molecules, and functions in diseases. Chem. Rev. 115, 2225-2239 (2015).
-
(2015)
Chem. Rev.
, vol.115
, pp. 2225-2239
-
-
Lu, X.1
Zhao, B.S.2
He, C.3
-
59
-
-
84876889621
-
What a difference a hydroxyl makes: Mutant IDH, (R)-2-hydroxyglutarate, and cancer
-
Losman, J. A. & Kaelin, W. G. Jr. What a difference a hydroxyl makes: Mutant IDH, (R)-2-hydroxyglutarate, and cancer. Genes Dev. 27, 836-852 (2013).
-
(2013)
Genes Dev.
, vol.27
, pp. 836-852
-
-
Losman, J.A.1
Kaelin, W.G.2
-
60
-
-
78651463452
-
Oncometabolite 2-hydroxyglutarate is a competitive inhibitor of alpha-ketoglutarate-dependent dioxygenases
-
Xu, W. et al. Oncometabolite 2-hydroxyglutarate is a competitive inhibitor of alpha-ketoglutarate-dependent dioxygenases. Cancer Cell 19, 17-30 (2011).
-
(2011)
Cancer Cell
, vol.19
, pp. 17-30
-
-
Xu, W.1
-
61
-
-
84866419591
-
Loss of 5-hydroxymethylcytosine is an epigenetic hallmark of melanoma
-
Lian, C. G. et al. Loss of 5-hydroxymethylcytosine is an epigenetic hallmark of melanoma. Cell 150, 1135-1146 (2012).
-
(2012)
Cell
, vol.150
, pp. 1135-1146
-
-
Lian, C.G.1
-
62
-
-
78650019179
-
Leukemic IDH1 and IDH2 mutations result in a hypermethylation phenotype, disrupt TET2 function, and impair hematopoietic differentiation
-
Figueroa, M. E. et al. Leukemic IDH1 and IDH2 mutations result in a hypermethylation phenotype, disrupt TET2 function, and impair hematopoietic differentiation. Cancer Cell 18, 553-567 (2010).
-
(2010)
Cancer Cell
, vol.18
, pp. 553-567
-
-
Figueroa, M.E.1
-
63
-
-
84862632865
-
Inhibition of alpha-KG-dependent histone and DNA demethylases by fumarate and succinate that are accumulated in mutations of FH and SDH tumor suppressors
-
Xiao, M. et al. Inhibition of alpha-KG-dependent histone and DNA demethylases by fumarate and succinate that are accumulated in mutations of FH and SDH tumor suppressors. Genes Dev. 26, 1326-1338 (2012).
-
(2012)
Genes Dev.
, vol.26
, pp. 1326-1338
-
-
Xiao, M.1
-
64
-
-
84964614586
-
Fumarate and succinate regulate expression of hypoxia-inducible genes via TET enzymes
-
Laukka, T. et al. Fumarate and succinate regulate expression of hypoxia-inducible genes via TET enzymes. J. Biol. Chem. 291, 4256-4265 (2016).
-
(2016)
J. Biol. Chem.
, vol.291
, pp. 4256-4265
-
-
Laukka, T.1
-
65
-
-
84905589840
-
TET-catalyzed 5-methylcytosine hydroxylation is dynamically regulated by metabolites
-
Yang, H. et al. TET-catalyzed 5-methylcytosine hydroxylation is dynamically regulated by metabolites. Cell Res. 24, 1017-1020 (2014).
-
(2014)
Cell Res.
, vol.24
, pp. 1017-1020
-
-
Yang, H.1
-
66
-
-
84902345994
-
TET1-mediated hydroxymethylation facilitates hypoxic gene induction in neuroblastoma
-
Mariani, C. J. et al. TET1-mediated hydroxymethylation facilitates hypoxic gene induction in neuroblastoma. Cell Rep. 7, 1343-1352 (2014).
-
(2014)
Cell Rep.
, vol.7
, pp. 1343-1352
-
-
Mariani, C.J.1
-
67
-
-
84965190662
-
TET1 regulates hypoxia-induced epithelial-mesenchymal transition by acting as a co-activator
-
Tsai, Y. P. et al. TET1 regulates hypoxia-induced epithelial-mesenchymal transition by acting as a co-activator. Genome Biol. 15, 513 (2014).
-
(2014)
Genome Biol.
, vol.15
, pp. 513
-
-
Tsai, Y.P.1
-
68
-
-
84984629881
-
Tumour hypoxia causes DNA hypermethylation by reducing TET activity
-
By analysing cell lines, mouse models and patient samples, this paper shows that hypoxia can cause DNA hypermethylation by reducing TET-mediated oxidation
-
Thienpont, B. et al. Tumour hypoxia causes DNA hypermethylation by reducing TET activity. Nature 537, 63-68 (2016). By analysing cell lines, mouse models and patient samples, this paper shows that hypoxia can cause DNA hypermethylation by reducing TET-mediated oxidation.
-
(2016)
Nature
, vol.537
, pp. 63-68
-
-
Thienpont, B.1
-
69
-
-
84896728067
-
Redox-active quinones induces genome-wide DNA methylation changes by an iron-mediated and Tet-dependent mechanism
-
Zhao, B. et al. Redox-active quinones induces genome-wide DNA methylation changes by an iron-mediated and Tet-dependent mechanism. Nucleic Acids Res. 42, 1593-1605 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 1593-1605
-
-
Zhao, B.1
-
70
-
-
84881476916
-
Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells
-
Blaschke, K. et al. Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells. Nature 500, 222-226 (2013).
-
(2013)
Nature
, vol.500
, pp. 222-226
-
-
Blaschke, K.1
-
71
-
-
84877693964
-
Ascorbate induces ten-eleven translocation (Tet) methylcytosine dioxygenase-mediated generation of 5-hydroxymethylcytosine
-
Minor, E. A., Court, B. L., Young, J. I. & Wang, G. Ascorbate induces ten-eleven translocation (Tet) methylcytosine dioxygenase-mediated generation of 5-hydroxymethylcytosine. J. Biol. Chem. 288, 13669-13674 (2013).
-
(2013)
J. Biol. Chem.
, vol.288
, pp. 13669-13674
-
-
Minor, E.A.1
Court, B.L.2
Young, J.I.3
Wang, G.4
-
72
-
-
84880344660
-
Ascorbic acid enhances Tet-mediated 5-methylcytosine oxidation and promotes DNA demethylation in mammals
-
Yin, R. et al. Ascorbic acid enhances Tet-mediated 5-methylcytosine oxidation and promotes DNA demethylation in mammals. J. Am. Chem. Soc. 135, 10396-10403 (2013).
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 10396-10403
-
-
Yin, R.1
-
73
-
-
84915821587
-
MicroRNA-15b promotes neurogenesis and inhibits neural progenitor proliferation by directly repressing TET3 during early neocortical development
-
Lv, X., Jiang, H., Liu, Y., Lei, X. & Jiao, J. MicroRNA-15b promotes neurogenesis and inhibits neural progenitor proliferation by directly repressing TET3 during early neocortical development. EMBO Rep. 15, 1305-1314 (2014).
-
(2014)
EMBO Rep.
, vol.15
, pp. 1305-1314
-
-
Lv, X.1
Jiang, H.2
Liu, Y.3
Lei, X.4
Jiao, J.5
-
74
-
-
84880571480
-
The oncogenic microRNA miR-22 targets the TET2 tumor suppressor to promote hematopoietic stem cell self-renewal and transformation
-
Song, S. J. et al. The oncogenic microRNA miR-22 targets the TET2 tumor suppressor to promote hematopoietic stem cell self-renewal and transformation. Cell Stem Cell 13, 87-101 (2013).
-
(2013)
Cell Stem Cell
, vol.13
, pp. 87-101
-
-
Song, S.J.1
-
75
-
-
84880570961
-
MicroRNA-antagonism regulates breast cancer stemness and metastasis via TET-family-dependent chromatin remodeling
-
Song, S. J. et al. MicroRNA-antagonism regulates breast cancer stemness and metastasis via TET-family-dependent chromatin remodeling. Cell 154, 311-324 (2013).
-
(2013)
Cell
, vol.154
, pp. 311-324
-
-
Song, S.J.1
-
76
-
-
84887046365
-
MicroRNA-26a targets ten eleven translocation enzymes and is regulated during pancreatic cell differentiation
-
Fu, X. et al. MicroRNA-26a targets ten eleven translocation enzymes and is regulated during pancreatic cell differentiation. Proc. Natl Acad. Sci. USA 110, 17892-17897 (2013).
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 17892-17897
-
-
Fu, X.1
-
77
-
-
84887021053
-
An extensive network of TET2-targeting MicroRNAs regulates malignant hematopoiesis
-
Cheng, J. et al. An extensive network of TET2-targeting MicroRNAs regulates malignant hematopoiesis. Cell Rep. 5, 471-481 (2013).
-
(2013)
Cell Rep.
, vol.5
, pp. 471-481
-
-
Cheng, J.1
-
78
-
-
84880085001
-
MiR-29 represses the activities of DNA methyltransferases and DNA demethylases
-
Morita, S. et al. miR-29 represses the activities of DNA methyltransferases and DNA demethylases. Int. J. Mol. Sci. 14, 14647-14658 (2013).
-
(2013)
Int. J. Mol. Sci.
, vol.14
, pp. 14647-14658
-
-
Morita, S.1
-
79
-
-
44449111693
-
MicroRNA 29c is down-regulated in nasopharyngeal carcinomas, up-regulating mRNAs encoding extracellular matrix proteins
-
Sengupta, S. et al. MicroRNA 29c is down-regulated in nasopharyngeal carcinomas, up-regulating mRNAs encoding extracellular matrix proteins. Proc. Natl Acad. Sci. USA 105, 5874-5878 (2008).
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 5874-5878
-
-
Sengupta, S.1
-
80
-
-
84880947688
-
Ten-eleven translocation (Tet) and thymine DNA glycosylase (TDG), components of the demethylation pathway, are direct targets of miRNA-29a
-
Zhang, P., Huang, B., Xu, X. & Sessa, W. C. Ten-eleven translocation (Tet) and thymine DNA glycosylase (TDG), components of the demethylation pathway, are direct targets of miRNA-29a. Biochem. Biophys. Res. Commun. 437, 368-373 (2013).
-
(2013)
Biochem. Biophys. Res. Commun.
, vol.437
, pp. 368-373
-
-
Zhang, P.1
Huang, B.2
Xu, X.3
Sessa, W.C.4
-
81
-
-
84942694022
-
TET2 repression by androgen hormone regulates global hydroxymethylation status and prostate cancer progression
-
Takayama, K. et al. TET2 repression by androgen hormone regulates global hydroxymethylation status and prostate cancer progression. Nat. Commun. 6, 8219 (2015).
-
(2015)
Nat. Commun.
, vol.6
, pp. 8219
-
-
Takayama, K.1
-
82
-
-
84938483889
-
MicroRNA-494 is a master epigenetic regulator of multiple invasion-suppressor microRNAs by targeting ten eleven translocation 1 in invasive human hepatocellular carcinoma tumors
-
Chuang, K. H. et al. MicroRNA-494 is a master epigenetic regulator of multiple invasion-suppressor microRNAs by targeting ten eleven translocation 1 in invasive human hepatocellular carcinoma tumors. Hepatology 62, 466-480 (2015).
-
(2015)
Hepatology
, vol.62
, pp. 466-480
-
-
Chuang, K.H.1
-
83
-
-
84991079577
-
Zfp281 coordinates opposing functions of Tet1 and Tet2 in pluripotent states
-
Fidalgo, M. et al. Zfp281 coordinates opposing functions of Tet1 and Tet2 in pluripotent states. Cell Stem Cell 19, 355-369 (2016).
-
(2016)
Cell Stem Cell
, vol.19
, pp. 355-369
-
-
Fidalgo, M.1
-
84
-
-
84934853987
-
DAZL regulates Tet1 translation in murine embryonic stem cells
-
Welling, M. et al. DAZL regulates Tet1 translation in murine embryonic stem cells. EMBO Rep. 16, 791-802 (2015).
-
(2015)
EMBO Rep.
, vol.16
, pp. 791-802
-
-
Welling, M.1
-
85
-
-
84921454586
-
CRL4(VprBP) E3 ligase promotes monoubiquitylation and chromatin binding of TET dioxygenases
-
Nakagawa, T. et al. CRL4(VprBP) E3 ligase promotes monoubiquitylation and chromatin binding of TET dioxygenases. Mol. Cell 57, 247-260 (2015).
-
(2015)
Mol. Cell
, vol.57
, pp. 247-260
-
-
Nakagawa, T.1
-
86
-
-
84880530231
-
Ten-eleven translocation 1 (Tet1) is regulated by O-linked N-acetylglucosamine transferase (Ogt) for target gene repression in mouse embryonic stem cells
-
Shi, F. T. et al. Ten-eleven translocation 1 (Tet1) is regulated by O-linked N-acetylglucosamine transferase (Ogt) for target gene repression in mouse embryonic stem cells. J. Biol. Chem. 288, 20776-20784 (2013).
-
(2013)
J. Biol. Chem.
, vol.288
, pp. 20776-20784
-
-
Shi, F.T.1
-
87
-
-
84943395409
-
5mC-hydroxylase activity is influenced by the PARylation of TET1 enzyme
-
Ciccarone, F., Valentini, E., Zampieri, M. & Caiafa, P. 5mC-hydroxylase activity is influenced by the PARylation of TET1 enzyme. Oncotarget 6, 24333-24347 (2015).
-
(2015)
Oncotarget
, vol.6
, pp. 24333-24347
-
-
Ciccarone, F.1
Valentini, E.2
Zampieri, M.3
Caiafa, P.4
-
88
-
-
84896858308
-
Differential regulation of the ten-eleven translocation (TET) family of dioxygenases by O-linked beta-N-acetylglucosamine transferase (OGT
-
Zhang, Q. et al. Differential regulation of the ten-eleven translocation (TET) family of dioxygenases by O-linked beta-N-acetylglucosamine transferase (OGT). J. Biol. Chem. 289, 5986-5996 (2014).
-
(2014)
J. Biol. Chem.
, vol.289
, pp. 5986-5996
-
-
Zhang, Q.1
-
89
-
-
84928231344
-
Phosphorylation of TET proteins is regulated via O-GlcNAcylation by the O-linked N-acetylglucosamine transferase (OGT
-
Bauer, C. et al. Phosphorylation of TET proteins is regulated via O-GlcNAcylation by the O-linked N-acetylglucosamine transferase (OGT). J. Biol. Chem. 290, 4801-4812 (2015).
-
(2015)
J. Biol. Chem.
, vol.290
, pp. 4801-4812
-
-
Bauer, C.1
-
90
-
-
84949532719
-
Alteration in 5-hydroxymethylcytosine-mediated epigenetic regulation leads to Purkinje cell vulnerability in ATM deficiency
-
Jiang, D. et al. Alteration in 5-hydroxymethylcytosine-mediated epigenetic regulation leads to Purkinje cell vulnerability in ATM deficiency. Brain 138, 3520-3536 (2015).
-
(2015)
Brain
, vol.138
, pp. 3520-3536
-
-
Jiang, D.1
-
91
-
-
84895911033
-
Regulation of TET protein stability by calpains
-
Wang, Y. & Zhang, Y. Regulation of TET protein stability by calpains. Cell Rep. 6, 278-284 (2014).
-
(2014)
Cell Rep.
, vol.6
, pp. 278-284
-
-
Wang, Y.1
Zhang, Y.2
-
92
-
-
79956292024
-
Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells
-
These authors show that TET1 functions at both active and repressed (bivalent) genes
-
Wu, H. et al. Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells. Nature 473, 389-393 (2011). These authors show that TET1 functions at both active and repressed (bivalent) genes.
-
(2011)
Nature
, vol.473
, pp. 389-393
-
-
Wu, H.1
-
93
-
-
79955948324
-
Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells
-
Xu, Y. et al. Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells. Mol. Cell 42, 451-464 (2011).
-
(2011)
Mol. Cell
, vol.42
, pp. 451-464
-
-
Xu, Y.1
-
94
-
-
79956302047
-
TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity
-
This paper shows that TET1 can contribute to transcriptional repression by recruiting the SIN3A co-repressor complex
-
Williams, K. et al. TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity. Nature 473, 343-348 (2011). This paper shows that TET1 can contribute to transcriptional repression by recruiting the SIN3A co-repressor complex.
-
(2011)
Nature
, vol.473
, pp. 343-348
-
-
Williams, K.1
-
95
-
-
84870883633
-
Tet3 CXXC domain and dioxygenase activity cooperatively regulate key genes for Xenopus eye and neural development
-
Xu, Y. et al. Tet3 CXXC domain and dioxygenase activity cooperatively regulate key genes for Xenopus eye and neural development. Cell 151, 1200-1213 (2012).
-
(2012)
Cell
, vol.151
, pp. 1200-1213
-
-
Xu, Y.1
-
96
-
-
84875370281
-
NANOG-dependent function of TET1 and TET2 in establishment of pluripotency
-
Costa, Y. et al. NANOG-dependent function of TET1 and TET2 in establishment of pluripotency. Nature 495, 370-374 (2013).
-
(2013)
Nature
, vol.495
, pp. 370-374
-
-
Costa, Y.1
-
97
-
-
84891523954
-
PRDM14 promotes active DNA demethylation through the ten-eleven translocation (TET)-mediated base excision repair pathway in embryonic stem cells
-
Okashita, N. et al. PRDM14 promotes active DNA demethylation through the ten-eleven translocation (TET)-mediated base excision repair pathway in embryonic stem cells. Development 141, 269-280 (2014).
-
(2014)
Development
, vol.141
, pp. 269-280
-
-
Okashita, N.1
-
98
-
-
84883064448
-
Genome-wide analysis identifies a functional association of Tet1 and Polycomb repressive complex 2 in mouse embryonic stem cells
-
Neri, F. et al. Genome-wide analysis identifies a functional association of Tet1 and Polycomb repressive complex 2 in mouse embryonic stem cells. Genome Biol. 14, R91 (2013).
-
(2013)
Genome Biol.
, vol.14
, pp. R91
-
-
Neri, F.1
-
99
-
-
84953410774
-
Lin28A binds active promoters and recruits Tet1 to regulate gene expression
-
Zeng, Y. et al. Lin28A binds active promoters and recruits Tet1 to regulate gene expression. Mol. Cell 61, 153-160 (2016).
-
(2016)
Mol. Cell
, vol.61
, pp. 153-160
-
-
Zeng, Y.1
-
100
-
-
84923847396
-
WT1 recruits TET2 to regulate its target gene expression and suppress leukemia cell proliferation
-
Wang, Y. et al. WT1 recruits TET2 to regulate its target gene expression and suppress leukemia cell proliferation. Mol. Cell 57, 662-673 (2015).
-
(2015)
Mol. Cell
, vol.57
, pp. 662-673
-
-
Wang, Y.1
-
101
-
-
84915789576
-
DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia
-
Rampal, R. et al. DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia. Cell Rep. 9, 1841-1855 (2014).
-
(2014)
Cell Rep.
, vol.9
, pp. 1841-1855
-
-
Rampal, R.1
-
102
-
-
84883685078
-
PU.1 target genes undergo Tet2-coupled demethylation and DNMT3b-mediated methylation in monocyte-to-osteoclast differentiation
-
de la Rica, L. et al. PU.1 target genes undergo Tet2-coupled demethylation and DNMT3b-mediated methylation in monocyte-to-osteoclast differentiation. Genome Biol. 14, R99 (2013).
-
(2013)
Genome Biol.
, vol.14
, pp. R99
-
-
De La Rica, L.1
-
103
-
-
84929267503
-
TET3 is recruited by REST for context-specific hydroxymethylation and induction of gene expression
-
Perera, A. et al. TET3 is recruited by REST for context-specific hydroxymethylation and induction of gene expression. Cell Rep. 11, 283-294 (2015).
-
(2015)
Cell Rep.
, vol.11
, pp. 283-294
-
-
Perera, A.1
-
104
-
-
84924234065
-
A dynamic CTCF chromatin binding landscape promotes DNA hydroxymethylation and transcriptional induction of adipocyte differentiation
-
Dubois-Chevalier, J. et al. A dynamic CTCF chromatin binding landscape promotes DNA hydroxymethylation and transcriptional induction of adipocyte differentiation. Nucleic Acids Res. 42, 10943-10959 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 10943-10959
-
-
Dubois-Chevalier, J.1
-
105
-
-
84881397528
-
PPARgamma-induced PARylation promotes local DNA demethylation by production of 5-hydroxymethylcytosine
-
Fujiki, K. et al. PPARgamma-induced PARylation promotes local DNA demethylation by production of 5-hydroxymethylcytosine. Nat. Commun. 4, 2262 (2013).
-
(2013)
Nat. Commun.
, vol.4
, pp. 2262
-
-
Fujiki, K.1
-
106
-
-
84866936331
-
Dynamic hydroxymethylation of deoxyribonucleic acid marks differentiation-associated enhancers
-
Serandour, A. A. et al. Dynamic hydroxymethylation of deoxyribonucleic acid marks differentiation-associated enhancers. Nucleic Acids Res. 40, 8255-8265 (2012).
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 8255-8265
-
-
Serandour, A.A.1
-
107
-
-
84923377643
-
Single-base resolution analysis of 5-formyl and 5-carboxyl cytosine reveals promoter DNA methylation dynamics
-
Neri, F. et al. Single-base resolution analysis of 5-formyl and 5-carboxyl cytosine reveals promoter DNA methylation dynamics. Cell Rep. 10, 674-683 (2015).
-
(2015)
Cell Rep.
, vol.10
, pp. 674-683
-
-
Neri, F.1
-
108
-
-
84886035297
-
A screen for hydroxymethylcytosine and formylcytosine binding proteins suggests functions in transcription and chromatin regulation
-
Iurlaro, M. et al. A screen for hydroxymethylcytosine and formylcytosine binding proteins suggests functions in transcription and chromatin regulation. Genome Biol. 14, R119 (2013).
-
(2013)
Genome Biol.
, vol.14
, pp. R119
-
-
Iurlaro, M.1
-
109
-
-
84874771985
-
Dynamic readers for 5-(hydroxy) methylcytosine and its oxidized derivatives
-
This study identifies potential reader proteins for 5hmC in mouse ESCs, neuronal progenitor cells and the adult mouse brain
-
Spruijt, C. G. et al. Dynamic readers for 5-(hydroxy) methylcytosine and its oxidized derivatives. Cell 152, 1146-1159 (2013). This study identifies potential reader proteins for 5hmC in mouse ESCs, neuronal progenitor cells and the adult mouse brain.
-
(2013)
Cell
, vol.152
, pp. 1146-1159
-
-
Spruijt, C.G.1
-
110
-
-
84906791043
-
Long noncoding RNA TARID directs demethylation and activation of the tumor suppressor TCF21 via GADD45A
-
Arab, K. et al. Long noncoding RNA TARID directs demethylation and activation of the tumor suppressor TCF21 via GADD45A. Mol. Cell 55, 604-614 (2014).
-
(2014)
Mol. Cell
, vol.55
, pp. 604-614
-
-
Arab, K.1
-
111
-
-
84958244058
-
Oestrogen receptor beta regulates epigenetic patterns at specific genomic loci through interaction with thymine DNA glycosylase
-
Liu, Y. et al. Oestrogen receptor beta regulates epigenetic patterns at specific genomic loci through interaction with thymine DNA glycosylase. Epigenetics Chromatin 9, 7 (2016).
-
(2016)
Epigenetics Chromatin
, vol.9
, pp. 7
-
-
Liu, Y.1
-
112
-
-
79960626636
-
The discovery of 5-formylcytosine in embryonic stem cell DNA
-
Pfaffeneder, T. et al. The discovery of 5-formylcytosine in embryonic stem cell DNA. Angew. Chem. Int. Ed. 50, 7008-7012 (2011).
-
(2011)
Angew. Chem. Int. Ed.
, vol.50
, pp. 7008-7012
-
-
Pfaffeneder, T.1
-
113
-
-
84937736036
-
5-Formylcytosine can be a stable DNA modification in mammals
-
Bachman, M. et al. 5-Formylcytosine can be a stable DNA modification in mammals. Nat. Chem. Biol. 11, 555-557 (2015).
-
(2015)
Nat. Chem. Biol.
, vol.11
, pp. 555-557
-
-
Bachman, M.1
-
114
-
-
84911493925
-
5-Hydroxymethylcytosine is a predominantly stable DNA modification
-
Bachman, M. et al. 5-Hydroxymethylcytosine is a predominantly stable DNA modification. Nat. Chem. 6, 1049-1055 (2014).
-
(2014)
Nat. Chem.
, vol.6
, pp. 1049-1055
-
-
Bachman, M.1
-
115
-
-
78650826181
-
Tissue distribution of 5-hydroxymethylcytosine and search for active demethylation intermediates
-
Globisch, D. et al. Tissue distribution of 5-hydroxymethylcytosine and search for active demethylation intermediates. PLoS ONE 5, e15367 (2010).
-
(2010)
PLoS ONE
, vol.5
, pp. e15367
-
-
Globisch, D.1
-
116
-
-
77954842819
-
Quantification of the sixth DNA base hydroxymethylcytosine in the brain
-
Munzel, M. et al. Quantification of the sixth DNA base hydroxymethylcytosine in the brain. Angew. Chem. Int. Ed. 49, 5375-5377 (2010).
-
(2010)
Angew. Chem. Int. Ed.
, vol.49
, pp. 5375-5377
-
-
Munzel, M.1
-
117
-
-
84861990517
-
Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome
-
This paper describes TAB-seq, the first method capable of profiling 5hmC at genome-scale and base-resolution
-
Yu, M. et al. Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome. Cell 149, 1368-1380 (2012). This paper describes TAB-seq, the first method capable of profiling 5hmC at genome-scale and base-resolution.
-
(2012)
Cell
, vol.149
, pp. 1368-1380
-
-
Yu, M.1
-
118
-
-
79954457998
-
Genome-wide analysis of 5-hydroxymethylcytosine distribution reveals its dual function in transcriptional regulation in mouse embryonic stem cells
-
Wu, H. et al. Genome-wide analysis of 5-hydroxymethylcytosine distribution reveals its dual function in transcriptional regulation in mouse embryonic stem cells. Genes Dev. 25, 679-684 (2011).
-
(2011)
Genes Dev.
, vol.25
, pp. 679-684
-
-
Wu, H.1
-
119
-
-
84861221693
-
Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
-
Booth, M. J. et al. Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution. Science 336, 934-937 (2012).
-
(2012)
Science
, vol.336
, pp. 934-937
-
-
Booth, M.J.1
-
120
-
-
84874266225
-
Tet proteins connect the O-linked N-acetylglucosamine transferase Ogt to chromatin in embryonic stem cells
-
Vella, P. et al. Tet proteins connect the O-linked N-acetylglucosamine transferase Ogt to chromatin in embryonic stem cells. Mol. Cell 49, 645-656 (2013).
-
(2013)
Mol. Cell
, vol.49
, pp. 645-656
-
-
Vella, P.1
-
121
-
-
79956308473
-
Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells
-
Pastor, W. A. et al. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature 473, 394-397 (2011).
-
(2011)
Nature
, vol.473
, pp. 394-397
-
-
Pastor, W.A.1
-
122
-
-
79959209733
-
5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells
-
Stroud, H., Feng, S., Morey Kinney, S., Pradhan, S. & Jacobsen, S. E. 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells. Genome Biol. 12, R54 (2011).
-
(2011)
Genome Biol.
, vol.12
, pp. R54
-
-
Stroud, H.1
Feng, S.2
Morey Kinney, S.3
Pradhan, S.4
Jacobsen, S.E.5
-
123
-
-
79959859654
-
Integrating 5-hydroxymethylcytosine into the epigenomic landscape of human embryonic stem cells
-
Szulwach, K. E. et al. Integrating 5-hydroxymethylcytosine into the epigenomic landscape of human embryonic stem cells. PLoS Genet. 7, e1002154 (2011).
-
(2011)
PLoS Genet.
, vol.7
, pp. e1002154
-
-
Szulwach, K.E.1
-
124
-
-
79956323623
-
Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation
-
Ficz, G. et al. Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation. Nature 473, 398-402 (2011).
-
(2011)
Nature
, vol.473
, pp. 398-402
-
-
Ficz, G.1
-
125
-
-
84892690160
-
Transcription factor occupancy can mediate active turnover of DNA methylation at regulatory regions
-
Feldmann, A. et al. Transcription factor occupancy can mediate active turnover of DNA methylation at regulatory regions. PLoS Genet. 9, e1003994 (2013).
-
(2013)
PLoS Genet.
, vol.9
, pp. e1003994
-
-
Feldmann, A.1
-
126
-
-
84874267510
-
High-resolution enzymatic mapping of genomic 5-hydroxymethylcytosine in mouse embryonic stem cells
-
Sun, Z. et al. High-resolution enzymatic mapping of genomic 5-hydroxymethylcytosine in mouse embryonic stem cells. Cell Rep. 3, 567-576 (2013).
-
(2013)
Cell Rep.
, vol.3
, pp. 567-576
-
-
Sun, Z.1
-
127
-
-
84355163093
-
DNA-binding factors shape the mouse methylome at distal regulatory regions
-
Stadler, M. B. et al. DNA-binding factors shape the mouse methylome at distal regulatory regions. Nature 480, 490-495 (2011).
-
(2011)
Nature
, vol.480
, pp. 490-495
-
-
Stadler, M.B.1
-
128
-
-
84876907152
-
Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming
-
Song, C. X. et al. Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming. Cell 153, 678-691 (2013).
-
(2013)
Cell
, vol.153
, pp. 678-691
-
-
Song, C.X.1
-
129
-
-
84865061978
-
Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase
-
Raiber, E. A. et al. Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase. Genome Biol. 13, R69 (2012).
-
(2012)
Genome Biol.
, vol.13
, pp. R69
-
-
Raiber, E.A.1
-
130
-
-
84924441282
-
Base-resolution maps of 5-formylcytosine and 5-carboxylcytosine reveal genome-wide DNA demethylation dynamics
-
Lu, X. et al. Base-resolution maps of 5-formylcytosine and 5-carboxylcytosine reveal genome-wide DNA demethylation dynamics. Cell Res. 25, 386-389 (2015).
-
(2015)
Cell Res.
, vol.25
, pp. 386-389
-
-
Lu, X.1
-
131
-
-
82255192294
-
5-HmC-mediated epigenetic dynamics during postnatal neurodevelopment and aging
-
Szulwach, K. E. et al. 5-HmC-mediated epigenetic dynamics during postnatal neurodevelopment and aging. Nat. Neurosci. 14, 1607-1616 (2011).
-
(2011)
Nat. Neurosci.
, vol.14
, pp. 1607-1616
-
-
Szulwach, K.E.1
-
132
-
-
78651280460
-
Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine
-
Song, C. X. et al. Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine. Nat. Biotechnol. 29, 68-72 (2011).
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 68-72
-
-
Song, C.X.1
-
133
-
-
84871563384
-
MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system
-
Mellen, M., Ayata, P., Dewell, S., Kriaucionis, S. & Heintz, N. MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system. Cell 151, 1417-1430 (2012).
-
(2012)
Cell
, vol.151
, pp. 1417-1430
-
-
Mellen, M.1
Ayata, P.2
Dewell, S.3
Kriaucionis, S.4
Heintz, N.5
-
134
-
-
84899091504
-
Whole-genome analysis of 5-hydroxymethylcytosine and 5-methylcytosine at base resolution in the human brain
-
Wen, L. et al. Whole-genome analysis of 5-hydroxymethylcytosine and 5-methylcytosine at base resolution in the human brain. Genome Biol. 15, R49 (2014).
-
(2014)
Genome Biol.
, vol.15
, pp. R49
-
-
Wen, L.1
-
135
-
-
84883393151
-
Alteration of genic 5-hydroxymethylcytosine patterning in olfactory neurons correlates with changes in gene expression and cell identity
-
Colquitt, B. M., Allen, W. E., Barnea, G. & Lomvardas, S. Alteration of genic 5-hydroxymethylcytosine patterning in olfactory neurons correlates with changes in gene expression and cell identity. Proc. Natl Acad. Sci. USA 110, 14682-14687 (2013).
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 14682-14687
-
-
Colquitt, B.M.1
Allen, W.E.2
Barnea, G.3
Lomvardas, S.4
-
136
-
-
84879663784
-
Global epigenomic reconfiguration during mammalian brain development
-
Lister, R. et al. Global epigenomic reconfiguration during mammalian brain development. Science 341, 1237905 (2013).
-
(2013)
Science
, vol.341
, pp. 1237905
-
-
Lister, R.1
-
137
-
-
79960249232
-
Genomic mapping of 5-hydroxymethylcytosine in the human brain
-
Jin, S. G., Wu, X., Li, A. X. & Pfeifer, G. P. Genomic mapping of 5-hydroxymethylcytosine in the human brain. Nucleic Acids Res. 39, 5015-5024 (2011).
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 5015-5024
-
-
Jin, S.G.1
Wu, X.2
Li, A.X.3
Pfeifer, G.P.4
-
138
-
-
84867230056
-
5-HmC in the brain is abundant in synaptic genes and shows differences at the exon- intron boundary
-
Khare, T. et al. 5-HmC in the brain is abundant in synaptic genes and shows differences at the exon- intron boundary. Nat. Struct. Mol. Biol. 19, 1037-1043 (2012).
-
(2012)
Nat. Struct. Mol. Biol.
, vol.19
, pp. 1037-1043
-
-
Khare, T.1
-
139
-
-
84870856116
-
Genome-wide DNA hydroxymethylation changes are associated with neurodevelopmental genes in the developing human cerebellum
-
Wang, T. et al. Genome-wide DNA hydroxymethylation changes are associated with neurodevelopmental genes in the developing human cerebellum. Hum. Mol. Genet. 21, 5500-5510 (2012).
-
(2012)
Hum. Mol. Genet.
, vol.21
, pp. 5500-5510
-
-
Wang, T.1
-
140
-
-
84907507329
-
Role of Tet proteins in enhancer activity and telomere elongation
-
By analysing the DNA methylome of Tet1;Tet2; Tet3 TKO mouse ESCs, this paper shows that TET regulates enhancer activity
-
Lu, F., Liu, Y., Jiang, L., Yamaguchi, S. & Zhang, Y. Role of Tet proteins in enhancer activity and telomere elongation. Genes Dev. 28, 2103-2119 (2014). By analysing the DNA methylome of Tet1;Tet2;Tet3 TKO mouse ESCs, this paper shows that TET regulates enhancer activity.
-
(2014)
Genes Dev.
, vol.28
, pp. 2103-2119
-
-
Lu, F.1
Liu, Y.2
Jiang, L.3
Yamaguchi, S.4
Zhang, Y.5
-
141
-
-
84908204470
-
5mC oxidation by Tet2 modulates enhancer activity and timing of transcriptome reprogramming during differentiation
-
By profiling DNA methylation and hydroxymethylation of Tet2 knockout mouse ESCs, this paper shows that TET2 regulates enhancer activity
-
Hon, G. C. et al. 5mC oxidation by Tet2 modulates enhancer activity and timing of transcriptome reprogramming during differentiation. Mol. Cell 56, 286-297 (2014). By profiling DNA methylation and hydroxymethylation of Tet2 knockout mouse ESCs, this paper shows that TET2 regulates enhancer activity.
-
(2014)
Mol. Cell
, vol.56
, pp. 286-297
-
-
Hon, G.C.1
-
142
-
-
84976465002
-
In vivo genome-wide profiling reveals a tissue-specific role for 5-formylcytosine
-
Iurlaro, M. et al. In vivo genome-wide profiling reveals a tissue-specific role for 5-formylcytosine. Genome Biol. 17, 141 (2016).
-
(2016)
Genome Biol.
, vol.17
, pp. 141
-
-
Iurlaro, M.1
-
143
-
-
84902313706
-
Transient accumulation of 5-carboxylcytosine indicates involvement of active demethylation in lineage specification of neural stem cells
-
Wheldon, L. M. et al. Transient accumulation of 5-carboxylcytosine indicates involvement of active demethylation in lineage specification of neural stem cells. Cell Rep. 7, 1353-1361 (2014).
-
(2014)
Cell Rep.
, vol.7
, pp. 1353-1361
-
-
Wheldon, L.M.1
-
144
-
-
85003443855
-
Cooperative action between SALL4A and TET proteins in stepwise oxidation of 5-methylcytosine
-
This study demonstrates that SALL4A can regulate the genetic processivity of TET
-
Xiong, J. et al. Cooperative action between SALL4A and TET proteins in stepwise oxidation of 5-methylcytosine. Mol. Cell. 64, 913-925 (2016). This study demonstrates that SALL4A can regulate the genetic processivity of TET.
-
(2016)
Mol. Cell.
, vol.64
, pp. 913-925
-
-
Xiong, J.1
-
145
-
-
84908093905
-
Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence
-
Hashimoto, H. et al. Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence. Genes Dev. 28, 2304-2313 (2014).
-
(2014)
Genes Dev.
, vol.28
, pp. 2304-2313
-
-
Hashimoto, H.1
-
146
-
-
85018323272
-
MAX is an epigenetic sensor of 5-carboxylcytosine and is altered in multiple myeloma
-
Wang, D. et al. MAX is an epigenetic sensor of 5-carboxylcytosine and is altered in multiple myeloma. Nucleic Acids Res. 45, 2396-2407 (2016).
-
(2016)
Nucleic Acids Res.
, vol.45
, pp. 2396-2407
-
-
Wang, D.1
-
147
-
-
84938411464
-
Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex
-
Wang, L. et al. Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex. Nature 523, 621-625 (2015).
-
(2015)
Nature
, vol.523
, pp. 621-625
-
-
Wang, L.1
-
148
-
-
84922598841
-
5-Formylcytosine alters the structure of the DNA double helix
-
Raiber, E. A. et al. 5-Formylcytosine alters the structure of the DNA double helix. Nat. Struct. Mol. Biol. 22, 44-49 (2015).
-
(2015)
Nat. Struct. Mol. Biol.
, vol.22
, pp. 44-49
-
-
Raiber, E.A.1
-
149
-
-
82855176833
-
Epigenetic reprogramming in mouse pre-implantation development and primordial germ cells
-
Saitou, M., Kagiwada, S. & Kurimoto, K. Epigenetic reprogramming in mouse pre-implantation development and primordial germ cells. Development 139, 15-31 (2012).
-
(2012)
Development
, vol.139
, pp. 15-31
-
-
Saitou, M.1
Kagiwada, S.2
Kurimoto, K.3
-
150
-
-
84902197893
-
Reprogramming the methylome: Erasing memory and creating diversity
-
Lee, H. J., Hore, T. A. & Reik, W. Reprogramming the methylome: Erasing memory and creating diversity. Cell Stem Cell 14, 710-719 (2014).
-
(2014)
Cell Stem Cell
, vol.14
, pp. 710-719
-
-
Lee, H.J.1
Hore, T.A.2
Reik, W.3
-
151
-
-
79952713567
-
5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming
-
Wossidlo, M. et al. 5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming. Nat. Commun. 2, 241 (2011).
-
(2011)
Nat. Commun.
, vol.2
, pp. 241
-
-
Wossidlo, M.1
-
152
-
-
79952763586
-
Reprogramming of the paternal genome upon fertilization involves genome-wide oxidation of 5-methylcytosine
-
References 151 and 152 show that active erasure of 5mC in the zygotic paternal genome is accompanied by the generation of 5hmC. Reference 151 also shows that TET3 mediates this process
-
Iqbal, K., Jin, S. G., Pfeifer, G. P. & Szabo, P. E. Reprogramming of the paternal genome upon fertilization involves genome-wide oxidation of 5-methylcytosine. Proc. Natl Acad. Sci. USA 108, 3642-3647 (2011). References 151 and 152 show that active erasure of 5mC in the zygotic paternal genome is accompanied by the generation of 5hmC. Reference 151 also shows that TET3 mediates this process.
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 3642-3647
-
-
Iqbal, K.1
Jin, S.G.2
Pfeifer, G.P.3
Szabo, P.E.4
-
153
-
-
82655187105
-
Generation and replication-dependent dilution of 5fC and 5caC during mouse preimplantation development
-
Inoue, A., Shen, L., Dai, Q., He, C. & Zhang, Y. Generation and replication-dependent dilution of 5fC and 5caC during mouse preimplantation development. Cell Res. 21, 1670-1676 (2011).
-
(2011)
Cell Res.
, vol.21
, pp. 1670-1676
-
-
Inoue, A.1
Shen, L.2
Dai, Q.3
He, C.4
Zhang, Y.5
-
154
-
-
84870618066
-
Transcriptional activation of transposable elements in mouse zygotes is independent of Tet3-mediated 5-methylcytosine oxidation
-
Inoue, A., Matoba, S. & Zhang, Y. Transcriptional activation of transposable elements in mouse zygotes is independent of Tet3-mediated 5-methylcytosine oxidation. Cell Res. 22, 1640-1649 (2012).
-
(2012)
Cell Res.
, vol.22
, pp. 1640-1649
-
-
Inoue, A.1
Matoba, S.2
Zhang, Y.3
-
155
-
-
80053348585
-
The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes
-
By establishing Tet3 conditional knockout mice, this paper examines the role of maternal TET3 in oxidizing 5mC and epigenetic reprogramming
-
Gu, T. P. et al. The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes. Nature 477, 606-610 (2011). By establishing Tet3 conditional knockout mice, this paper examines the role of maternal TET3 in oxidizing 5mC and epigenetic reprogramming.
-
(2011)
Nature
, vol.477
, pp. 606-610
-
-
Gu, T.P.1
-
156
-
-
0032528255
-
Chromosome methylation patterns during mammalian preimplantation development
-
Rougier, N. et al. Chromosome methylation patterns during mammalian preimplantation development. Genes Dev. 12, 2108-2113 (1998).
-
(1998)
Genes Dev.
, vol.12
, pp. 2108-2113
-
-
Rougier, N.1
-
157
-
-
80054097425
-
Replication-dependent loss of 5-hydroxymethylcytosine in mouse preimplantation embryos
-
This study shows by immunostaining that 5hmC on the zygotic paternal genome is passively diluted by replication
-
Inoue, A. & Zhang, Y. Replication-dependent loss of 5-hydroxymethylcytosine in mouse preimplantation embryos. Science 334, 194 (2011). This study shows by immunostaining that 5hmC on the zygotic paternal genome is passively diluted by replication.
-
(2011)
Science
, vol.334
, pp. 194
-
-
Inoue, A.1
Zhang, Y.2
-
158
-
-
0035937404
-
Genomic imprinting disrupted by a maternal effect mutation in the Dnmt1 gene
-
Howell, C. Y. et al. Genomic imprinting disrupted by a maternal effect mutation in the Dnmt1 gene. Cell 104, 829-838 (2001).
-
(2001)
Cell
, vol.104
, pp. 829-838
-
-
Howell, C.Y.1
-
159
-
-
84914817563
-
Active and passive demethylation of male and female pronuclear DNA in the mammalian zygote
-
Guo, F. et al. Active and passive demethylation of male and female pronuclear DNA in the mammalian zygote. Cell Stem Cell 15, 447-458 (2014).
-
(2014)
Cell Stem Cell
, vol.15
, pp. 447-458
-
-
Guo, F.1
-
160
-
-
84914818905
-
Tet3 and DNA replication mediate demethylation of both the maternal and paternal genomes in mouse zygotes
-
References 159 and 160 show that DNA replication is the driving force of demethylation in the zygote, although TET3-mediated oxidation facilitates this process to some extent
-
Shen, L. et al. Tet3 and DNA replication mediate demethylation of both the maternal and paternal genomes in mouse zygotes. Cell Stem Cell 15, 459-470 (2014). References 159 and 160 show that DNA replication is the driving force of demethylation in the zygote, although TET3-mediated oxidation facilitates this process to some extent.
-
(2014)
Cell Stem Cell
, vol.15
, pp. 459-470
-
-
Shen, L.1
-
161
-
-
84919863433
-
Genome-wide bisulfite sequencing in zygotes identifies demethylation targets and maps the contribution of TET3 oxidation
-
Peat, J. R. et al. Genome-wide bisulfite sequencing in zygotes identifies demethylation targets and maps the contribution of TET3 oxidation. Cell Rep. 9, 1990-2000 (2014).
-
(2014)
Cell Rep.
, vol.9
, pp. 1990-2000
-
-
Peat, J.R.1
-
162
-
-
84900300766
-
Programming and inheritance of parental DNA methylomes in mammals
-
Wang, L. et al. Programming and inheritance of parental DNA methylomes in mammals. Cell 157, 979-991 (2014).
-
(2014)
Cell
, vol.157
, pp. 979-991
-
-
Wang, L.1
-
163
-
-
85016075716
-
Single-cell 5-formylcytosine landscapes of mammalian early embryos and ESCs at single-base resolution
-
Zhu, C. et al. Single-cell 5-formylcytosine landscapes of mammalian early embryos and ESCs at single-base resolution. Cell Stem Cell 5, 720-731.e5 (2017).
-
(2017)
Cell Stem Cell
, vol.5
, pp. 720-731
-
-
Zhu, C.1
-
164
-
-
84862551364
-
PGC7 binds histone H3K9me2 to protect against conversion of 5mC to 5hmC in early embryos
-
Nakamura, T. et al. PGC7 binds histone H3K9me2 to protect against conversion of 5mC to 5hmC in early embryos. Nature 486, 415-419 (2012).
-
(2012)
Nature
, vol.486
, pp. 415-419
-
-
Nakamura, T.1
-
165
-
-
33845885282
-
PGC7/Stella protects against DNA demethylation in early embryogenesis
-
Nakamura, T. et al. PGC7/Stella protects against DNA demethylation in early embryogenesis. Nat. Cell Biol. 9, 64-71 (2007).
-
(2007)
Nat. Cell Biol.
, vol.9
, pp. 64-71
-
-
Nakamura, T.1
-
166
-
-
84899016950
-
PGC7 suppresses TET3 for protecting DNA methylation
-
Bian, C. & Yu, X. PGC7 suppresses TET3 for protecting DNA methylation. Nucleic Acids Res. 42, 2893-2905 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 2893-2905
-
-
Bian, C.1
Yu, X.2
-
167
-
-
79959567069
-
Deterministic and stochastic allele specific gene expression in single mouse blastomeres
-
Tang, F. et al. Deterministic and stochastic allele specific gene expression in single mouse blastomeres. PLoS ONE 6, e21208 (2011).
-
(2011)
PLoS ONE
, vol.6
, pp. e21208
-
-
Tang, F.1
-
168
-
-
85017246672
-
Simultaneous mapping of active DNA demethylation and sister chromatid exchange in single cells
-
Wu, X., Inoue, A., Suzuki, T. & Zhang, Y. Simultaneous mapping of active DNA demethylation and sister chromatid exchange in single cells. Genes Dev. 31, 511-523 (2017).
-
(2017)
Genes Dev.
, vol.31
, pp. 511-523
-
-
Wu, X.1
Inoue, A.2
Suzuki, T.3
Zhang, Y.4
-
169
-
-
77953596050
-
Dynamic link of DNA demethylation, DNA strand breaks and repair in mouse zygotes
-
Wossidlo, M. et al. Dynamic link of DNA demethylation, DNA strand breaks and repair in mouse zygotes. EMBO J. 29, 1877-1888 (2010).
-
(2010)
EMBO J.
, vol.29
, pp. 1877-1888
-
-
Wossidlo, M.1
-
170
-
-
85006317865
-
A surveillance mechanism ensures repair of DNA lesions during zygotic reprogramming
-
Ladstatter, S. & Tachibana-Konwalski, K. A surveillance mechanism ensures repair of DNA lesions during zygotic reprogramming. Cell 15, 1774-1787.e13 (2016).
-
(2016)
Cell
, vol.15
, pp. 1774-1787
-
-
Ladstatter, S.1
Tachibana-Konwalski, K.2
-
171
-
-
77954345408
-
Genome-wide reprogramming in the mouse germ line entails the base excision repair pathway
-
Hajkova, P. et al. Genome-wide reprogramming in the mouse germ line entails the base excision repair pathway. Science 329, 78-82 (2010).
-
(2010)
Science
, vol.329
, pp. 78-82
-
-
Hajkova, P.1
-
172
-
-
84887354987
-
Active demethylation in mouse zygotes involves cytosine deamination and base excision repair
-
Santos, F. et al. Active demethylation in mouse zygotes involves cytosine deamination and base excision repair. Epigenetics Chromatin 6, 39 (2013).
-
(2013)
Epigenetics Chromatin
, vol.6
, pp. 39
-
-
Santos, F.1
-
173
-
-
84956699513
-
De novo DNA methylation drives 5hmC accumulation in mouse zygotes
-
Amouroux, R. et al. De novo DNA methylation drives 5hmC accumulation in mouse zygotes. Nat. Cell Biol. 18, 225-233 (2016).
-
(2016)
Nat. Cell Biol.
, vol.18
, pp. 225-233
-
-
Amouroux, R.1
-
174
-
-
84988556977
-
Selective impairment of methylation maintenance is the major cause of DNA methylation reprogramming in the early embryo
-
Arand, J. et al. Selective impairment of methylation maintenance is the major cause of DNA methylation reprogramming in the early embryo. Epigenetics Chromatin 8, 1 (2015).
-
(2015)
Epigenetics Chromatin
, vol.8
, pp. 1
-
-
Arand, J.1
-
175
-
-
84922789354
-
Haploinsufficiency but not defective paternal 5mC oxidation, accounts for the developmental defects of maternal Tet3 knockouts
-
Inoue, A., Shen, L., Matoba, S. & Zhang, Y. Haploinsufficiency, but not defective paternal 5mC oxidation, accounts for the developmental defects of maternal Tet3 knockouts. Cell Rep. 10, 463-470 (2015).
-
(2015)
Cell Rep.
, vol.10
, pp. 463-470
-
-
Inoue, A.1
Shen, L.2
Matoba, S.3
Zhang, Y.4
-
176
-
-
84945925222
-
Maternal TET3 is dispensable for embryonic development but is required for neonatal growth
-
Tsukada, Y., Akiyama, T. & Nakayama, K. I. Maternal TET3 is dispensable for embryonic development but is required for neonatal growth. Sci. Rep. 5, 15876 (2015).
-
(2015)
Sci. Rep.
, vol.5
, pp. 15876
-
-
Tsukada, Y.1
Akiyama, T.2
Nakayama, K.I.3
-
177
-
-
84938719137
-
Simultaneous deletion of the methylcytosine oxidases Tet1 and Tet3 increases transcriptome variability in early embryogenesis
-
Kang, J. et al. Simultaneous deletion of the methylcytosine oxidases Tet1 and Tet3 increases transcriptome variability in early embryogenesis. Proc. Natl Acad. Sci. USA 112, E4236-E4245 (2015).
-
(2015)
Proc. Natl Acad. Sci. USA
, vol.112
, pp. E4236-E4245
-
-
Kang, J.1
-
178
-
-
38349100549
-
Epigenetic events in mammalian germ-cell development: Reprogramming and beyond
-
Sasaki, H. & Matsui, Y. Epigenetic events in mammalian germ-cell development: Reprogramming and beyond. Nat. Rev. Genet. 9, 129-140 (2008).
-
(2008)
Nat. Rev. Genet.
, vol.9
, pp. 129-140
-
-
Sasaki, H.1
Matsui, Y.2
-
179
-
-
84930476912
-
DNA demethylation dynamics in the human prenatal germline
-
Gkountela, S. et al. DNA demethylation dynamics in the human prenatal germline. Cell 161, 1425-1436 (2015).
-
(2015)
Cell
, vol.161
, pp. 1425-1436
-
-
Gkountela, S.1
-
180
-
-
84930613577
-
The transcriptome and DNA methylome landscapes of human primordial germ cells
-
Guo, F. et al. The transcriptome and DNA methylome landscapes of human primordial germ cells. Cell 161, 1437-1452 (2015).
-
(2015)
Cell
, vol.161
, pp. 1437-1452
-
-
Guo, F.1
-
181
-
-
84930618214
-
A unique gene regulatory network resets the human germline epigenome for development
-
Tang, W. W. et al. A unique gene regulatory network resets the human germline epigenome for development. Cell 161, 1453-1467 (2015).
-
(2015)
Cell
, vol.161
, pp. 1453-1467
-
-
Tang, W.W.1
-
182
-
-
84984791531
-
Specification and epigenetic programming of the human germ line
-
Tang, W. W., Kobayashi, T., Irie, N., Dietmann, S. & Surani, M. A. Specification and epigenetic programming of the human germ line. Nat. Rev. Genet. 17, 585-600 (2016).
-
(2016)
Nat. Rev. Genet.
, vol.17
, pp. 585-600
-
-
Tang, W.W.1
Kobayashi, T.2
Irie, N.3
Dietmann, S.4
Surani, M.A.5
-
183
-
-
84871702441
-
The dynamics of genome-wide DNA methylation reprogramming in mouse primordial germ cells
-
Seisenberger, S. et al. The dynamics of genome-wide DNA methylation reprogramming in mouse primordial germ cells. Mol. Cell 48, 849-862 (2012).
-
(2012)
Mol. Cell
, vol.48
, pp. 849-862
-
-
Seisenberger, S.1
-
184
-
-
84859910536
-
A unique regulatory phase of DNA methylation in the early mammalian embryo
-
Smith, Z. D. et al. A unique regulatory phase of DNA methylation in the early mammalian embryo. Nature 484, 339-344 (2012).
-
(2012)
Nature
, vol.484
, pp. 339-344
-
-
Smith, Z.D.1
-
185
-
-
84874655393
-
Dynamics of 5-methylcytosine and 5-hydroxymethylcytosine during germ cell reprogramming
-
Yamaguchi, S. et al. Dynamics of 5-methylcytosine and 5-hydroxymethylcytosine during germ cell reprogramming. Cell Res. 23, 329-339 (2013).
-
(2013)
Cell Res.
, vol.23
, pp. 329-339
-
-
Yamaguchi, S.1
-
186
-
-
84871438065
-
Tet1 controls meiosis by regulating meiotic gene expression
-
Yamaguchi, S. et al. Tet1 controls meiosis by regulating meiotic gene expression. Nature 492, 443-447 (2012).
-
(2012)
Nature
, vol.492
, pp. 443-447
-
-
Yamaguchi, S.1
-
187
-
-
84890568163
-
Role of Tet1 in erasure of genomic imprinting
-
This paper demonstrates that TET1 mediates the erasure of genomic imprinting during PGC development
-
Yamaguchi, S., Shen, L., Liu, Y., Sendler, D. & Zhang, Y. Role of Tet1 in erasure of genomic imprinting. Nature 504, 460-464 (2013). This paper demonstrates that TET1 mediates the erasure of genomic imprinting during PGC development.
-
(2013)
Nature
, vol.504
, pp. 460-464
-
-
Yamaguchi, S.1
Shen, L.2
Liu, Y.3
Sendler, D.4
Zhang, Y.5
-
188
-
-
45349107280
-
Complex genome-wide transcription dynamics orchestrated by Blimp1 for the specification of the germ cell lineage in mice
-
Kurimoto, K. et al. Complex genome-wide transcription dynamics orchestrated by Blimp1 for the specification of the germ cell lineage in mice. Genes Dev. 22, 1617-1635 (2008).
-
(2008)
Genes Dev.
, vol.22
, pp. 1617-1635
-
-
Kurimoto, K.1
-
189
-
-
84873570094
-
Replication-coupled passive DNA demethylation for the erasure of genome imprints in mice
-
Kagiwada, S., Kurimoto, K., Hirota, T., Yamaji, M. & Saitou, M. Replication-coupled passive DNA demethylation for the erasure of genome imprints in mice. EMBO J. 32, 340-353 (2013).
-
(2013)
EMBO J.
, vol.32
, pp. 340-353
-
-
Kagiwada, S.1
Kurimoto, K.2
Hirota, T.3
Yamaji, M.4
Saitou, M.5
-
190
-
-
84879745846
-
A replication-dependent passive mechanism modulates DNA demethylation in mouse primordial germ cells
-
Ohno, R. et al. A replication-dependent passive mechanism modulates DNA demethylation in mouse primordial germ cells. Development 140, 2892-2903 (2013).
-
(2013)
Development
, vol.140
, pp. 2892-2903
-
-
Ohno, R.1
-
191
-
-
12944308793
-
Extensive and orderly reprogramming of genome-wide chromatin modifications associated with specification and early development of germ cells in mice
-
Seki, Y. et al. Extensive and orderly reprogramming of genome-wide chromatin modifications associated with specification and early development of germ cells in mice. Dev. Biol. 278, 440-458 (2005).
-
(2005)
Dev. Biol.
, vol.278
, pp. 440-458
-
-
Seki, Y.1
-
192
-
-
84859519339
-
Global profiling of DNA methylation erasure in mouse primordial germ cells
-
Guibert, S., Forne, T. & Weber, M. Global profiling of DNA methylation erasure in mouse primordial germ cells. Genome Res. 22, 633-641 (2012).
-
(2012)
Genome Res.
, vol.22
, pp. 633-641
-
-
Guibert, S.1
Forne, T.2
Weber, M.3
-
193
-
-
0036768615
-
Epigenetic reprogramming in mouse primordial germ cells
-
Hajkova, P. et al. Epigenetic reprogramming in mouse primordial germ cells. Mech. Dev. 117, 15-23 (2002).
-
(2002)
Mech. Dev.
, vol.117
, pp. 15-23
-
-
Hajkova, P.1
-
194
-
-
84872770694
-
Germline DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine
-
This study presents the dynamics of 5mC, 5hmC and TET during PGC development
-
Hackett, J. A. et al. Germline DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine. Science 339, 448-452 (2013). This study presents the dynamics of 5mC, 5hmC and TET during PGC development.
-
(2013)
Science
, vol.339
, pp. 448-452
-
-
Hackett, J.A.1
-
195
-
-
84875990411
-
High-resolution DNA methylome analysis of primordial germ cells identifies gender-specific reprogramming in mice
-
Kobayashi, H. et al. High-resolution DNA methylome analysis of primordial germ cells identifies gender-specific reprogramming in mice. Genome Res. 23, 616-627 (2013).
-
(2013)
Genome Res.
, vol.23
, pp. 616-627
-
-
Kobayashi, H.1
-
196
-
-
84873707539
-
Combined deficiency of Tet1 and Tet2 causes epigenetic abnormalities but is compatible with postnatal development
-
Dawlaty, M. M. et al. Combined deficiency of Tet1 and Tet2 causes epigenetic abnormalities but is compatible with postnatal development. Dev. Cell 24, 310-323 (2013).
-
(2013)
Dev. Cell
, vol.24
, pp. 310-323
-
-
Dawlaty, M.M.1
-
197
-
-
84992663849
-
Stage-specific demethylation in primordial germ cells safeguards against precocious differentiation
-
Hargan-Calvopina, J. et al. Stage-specific demethylation in primordial germ cells safeguards against precocious differentiation. Dev. Cell 39, 75-86 (2016).
-
(2016)
Dev. Cell
, vol.39
, pp. 75-86
-
-
Hargan-Calvopina, J.1
-
198
-
-
78149487692
-
Pluripotency and cellular reprogramming: Facts, hypotheses, unresolved issues
-
Hanna, J. H., Saha, K. & Jaenisch, R. Pluripotency and cellular reprogramming: Facts, hypotheses, unresolved issues. Cell 143, 508-525 (2010).
-
(2010)
Cell
, vol.143
, pp. 508-525
-
-
Hanna, J.H.1
Saha, K.2
Jaenisch, R.3
-
199
-
-
79961139741
-
Tet1 is dispensable for maintaining pluripotency and its loss is compatible with embryonic and postnatal development
-
Dawlaty, M. M. et al. Tet1 is dispensable for maintaining pluripotency and its loss is compatible with embryonic and postnatal development. Cell Stem Cell 9, 166-175 (2011).
-
(2011)
Cell Stem Cell
, vol.9
, pp. 166-175
-
-
Dawlaty, M.M.1
-
200
-
-
79551587102
-
Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells
-
Koh, K. P. et al. Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells. Cell Stem Cell 8, 200-213 (2011).
-
(2011)
Cell Stem Cell
, vol.8
, pp. 200-213
-
-
Koh, K.P.1
-
201
-
-
84893373754
-
Distinct roles of the methylcytosine oxidases Tet1 and Tet2 in mouse embryonic stem cells
-
Huang, Y. et al. Distinct roles of the methylcytosine oxidases Tet1 and Tet2 in mouse embryonic stem cells. Proc. Natl Acad. Sci. USA 111, 1361-1366 (2014).
-
(2014)
Proc. Natl Acad. Sci. USA
, vol.111
, pp. 1361-1366
-
-
Huang, Y.1
-
202
-
-
79960064353
-
Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation
-
Moran-Crusio, K. et al. Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation. Cancer Cell 20, 11-24 (2011).
-
(2011)
Cancer Cell
, vol.20
, pp. 11-24
-
-
Moran-Crusio, K.1
-
203
-
-
79960062301
-
TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis
-
Quivoron, C. et al. TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis. Cancer Cell 20, 25-38 (2011).
-
(2011)
Cancer Cell
, vol.20
, pp. 25-38
-
-
Quivoron, C.1
-
204
-
-
80052284526
-
Ten-eleven-translocation 2 (TET2) negatively regulates homeostasis and differentiation of hematopoietic stem cells in mice
-
Ko, M. et al. Ten-eleven-translocation 2 (TET2) negatively regulates homeostasis and differentiation of hematopoietic stem cells in mice. Proc. Natl Acad. Sci. USA 108, 14566-14571 (2011).
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 14566-14571
-
-
Ko, M.1
-
205
-
-
80052285127
-
Deletion of Tet2 in mice leads to dysregulated hematopoietic stem cells and subsequent development of myeloid malignancies
-
Li, Z. et al. Deletion of Tet2 in mice leads to dysregulated hematopoietic stem cells and subsequent development of myeloid malignancies. Blood 118, 4509-4518 (2011).
-
(2011)
Blood
, vol.118
, pp. 4509-4518
-
-
Li, Z.1
-
206
-
-
84898482006
-
Loss of Tet enzymes compromises proper differentiation of embryonic stem cells
-
Dawlaty, M. M. et al. Loss of Tet enzymes compromises proper differentiation of embryonic stem cells. Dev. Cell 29, 102-111 (2014).
-
(2014)
Dev. Cell
, vol.29
, pp. 102-111
-
-
Dawlaty, M.M.1
-
207
-
-
84897989106
-
Tet and TDG mediate DNA demethylation essential for mesenchymal-to-epithelial transition in somatic cell reprogramming
-
Hu, X. et al. Tet and TDG mediate DNA demethylation essential for mesenchymal-to-epithelial transition in somatic cell reprogramming. Cell Stem Cell 14, 512-522 (2014).
-
(2014)
Cell Stem Cell
, vol.14
, pp. 512-522
-
-
Hu, X.1
-
208
-
-
84994051865
-
TET-mediated DNA demethylation controls gastrulation by regulating Lefty-Nodal signalling
-
Dai, H. Q. et al. TET-mediated DNA demethylation controls gastrulation by regulating Lefty-Nodal signalling. Nature 538, 528-532 (2016).
-
(2016)
Nature
, vol.538
, pp. 528-532
-
-
Dai, H.Q.1
-
209
-
-
79951810964
-
Embryonic lethal phenotype reveals a function of TDG in maintaining epigenetic stability
-
Cortazar, D. et al. Embryonic lethal phenotype reveals a function of TDG in maintaining epigenetic stability. Nature 470, 419-423 (2011).
-
(2011)
Nature
, vol.470
, pp. 419-423
-
-
Cortazar, D.1
-
210
-
-
79959937861
-
Thymine DNA glycosylase is essential for active DNA demethylation by linked deamination-base excision repair
-
Cortellino, S. et al. Thymine DNA glycosylase is essential for active DNA demethylation by linked deamination-base excision repair. Cell 146, 67-79 (2011).
-
(2011)
Cell
, vol.146
, pp. 67-79
-
-
Cortellino, S.1
-
211
-
-
84865486793
-
Early-stage epigenetic modification during somatic cell reprogramming by Parp1 and Tet2
-
Doege, C. A. et al. Early-stage epigenetic modification during somatic cell reprogramming by Parp1 and Tet2. Nature 488, 652-655 (2012).
-
(2012)
Nature
, vol.488
, pp. 652-655
-
-
Doege, C.A.1
-
212
-
-
84878009530
-
5-Hydroxymethylcytosine is an essential intermediate of active DNA demethylation processes in primary human monocytes
-
Klug, M., Schmidhofer, S., Gebhard, C., Andreesen, R. & Rehli, M. 5-Hydroxymethylcytosine is an essential intermediate of active DNA demethylation processes in primary human monocytes. Genome Biol. 14, R46 (2013).
-
(2013)
Genome Biol.
, vol.14
, pp. R46
-
-
Klug, M.1
Schmidhofer, S.2
Gebhard, C.3
Andreesen, R.4
Rehli, M.5
-
213
-
-
84964963496
-
TET2 regulates mast cell differentiation and proliferation through catalytic and non-catalytic activities
-
Montagner, S. et al. TET2 regulates mast cell differentiation and proliferation through catalytic and non-catalytic activities. Cell Rep. 15, 1566-1579 (2016).
-
(2016)
Cell Rep.
, vol.15
, pp. 1566-1579
-
-
Montagner, S.1
-
214
-
-
84961213356
-
Control of Foxp3 stability through modulation of TET activity
-
Yue, X. et al. Control of Foxp3 stability through modulation of TET activity. J. Exp. Med. 213, 377-397 (2016).
-
(2016)
J. Exp. Med.
, vol.213
, pp. 377-397
-
-
Yue, X.1
-
215
-
-
85005995773
-
Tet2 and Tet3 cooperate with B-lineage transcription factors to regulate DNA modification and chromatin accessibility
-
Lio, C. J. et al. Tet2 and Tet3 cooperate with B-lineage transcription factors to regulate DNA modification and chromatin accessibility. eLife 5, e18290 (2016).
-
(2016)
ELife
, vol.5
, pp. e18290
-
-
Lio, C.J.1
-
216
-
-
84996836078
-
TET proteins regulate the lineage specification and TCR-mediated expansion of iNKT cells
-
Tsagaratou, A. et al. TET proteins regulate the lineage specification and TCR-mediated expansion of iNKT cells. Nat. Immunol. 18, 45-53 (2016).
-
(2016)
Nat. Immunol.
, vol.18
, pp. 45-53
-
-
Tsagaratou, A.1
-
217
-
-
84971524716
-
Tissue-specific DNA demethylation is required for proper B-cell differentiation and function
-
Orlanski, S. et al. Tissue-specific DNA demethylation is required for proper B-cell differentiation and function. Proc. Natl Acad. Sci. USA 113, 5018-5023 (2016).
-
(2016)
Proc. Natl Acad. Sci. USA
, vol.113
, pp. 5018-5023
-
-
Orlanski, S.1
-
218
-
-
84928184771
-
The methylcytosine dioxygenase Tet2 promotes DNA demethylation and activation of cytokine gene expression in T cells
-
Ichiyama, K. et al. The methylcytosine dioxygenase Tet2 promotes DNA demethylation and activation of cytokine gene expression in T cells. Immunity 42, 613-626 (2015).
-
(2015)
Immunity
, vol.42
, pp. 613-626
-
-
Ichiyama, K.1
-
219
-
-
0242300612
-
DNA methylation-related chromatin remodeling in activity-dependent BDNF gene regulation
-
Martinowich, K. et al. DNA methylation-related chromatin remodeling in activity-dependent BDNF gene regulation. Science 302, 890-893 (2003).
-
(2003)
Science
, vol.302
, pp. 890-893
-
-
Martinowich, K.1
-
220
-
-
60749094831
-
Neuronal activity-induced Gadd45b promotes epigenetic DNA demethylation and adult neurogenesis
-
Ma, D. K. et al. Neuronal activity-induced Gadd45b promotes epigenetic DNA demethylation and adult neurogenesis. Science 323, 1074-1077 (2009).
-
(2009)
Science
, vol.323
, pp. 1074-1077
-
-
Ma, D.K.1
-
221
-
-
80053270332
-
Neuronal activity modifies the DNA methylation landscape in the adult brain
-
Guo, J. U. et al. Neuronal activity modifies the DNA methylation landscape in the adult brain. Nat. Neurosci. 14, 1345-1351 (2011).
-
(2011)
Nat. Neurosci.
, vol.14
, pp. 1345-1351
-
-
Guo, J.U.1
-
222
-
-
33847614418
-
Covalent modification of DNA regulates memory formation
-
Miller, C. A. & Sweatt, J. D. Covalent modification of DNA regulates memory formation. Neuron 53, 857-869 (2007).
-
(2007)
Neuron
, vol.53
, pp. 857-869
-
-
Miller, C.A.1
Sweatt, J.D.2
-
223
-
-
54849426071
-
Epigenetic regulation of BDNF gene transcription in the consolidation of fear memory
-
Lubin, F. D., Roth, T. L. & Sweatt, J. D. Epigenetic regulation of BDNF gene transcription in the consolidation of fear memory. J. Neurosci. 28, 10576-10586 (2008).
-
(2008)
J. Neurosci.
, vol.28
, pp. 10576-10586
-
-
Lubin, F.D.1
Roth, T.L.2
Sweatt, J.D.3
-
224
-
-
79955538247
-
Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain
-
Guo, J. U., Su, Y., Zhong, C., Ming, G. L. & Song, H. Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain. Cell 145, 423-434 (2011).
-
(2011)
Cell
, vol.145
, pp. 423-434
-
-
Guo, J.U.1
Su, Y.2
Zhong, C.3
Ming, G.L.4
Song, H.5
-
225
-
-
0242332183
-
Derepression of BDNF transcription involves calcium-dependent phosphorylation of MeCP2
-
Chen, W. G. et al. Derepression of BDNF transcription involves calcium-dependent phosphorylation of MeCP2. Science 302, 885-889 (2003).
-
(2003)
Science
, vol.302
, pp. 885-889
-
-
Chen, W.G.1
-
226
-
-
84881178902
-
Tet1 regulates adult hippocampal neurogenesis and cognition
-
Zhang, R. R. et al. Tet1 regulates adult hippocampal neurogenesis and cognition. Cell Stem Cell 13, 237-245 (2013).
-
(2013)
Cell Stem Cell
, vol.13
, pp. 237-245
-
-
Zhang, R.R.1
-
227
-
-
84884241288
-
Tet1 is critical for neuronal activity-regulated gene expression and memory extinction
-
Rudenko, A. et al. Tet1 is critical for neuronal activity-regulated gene expression and memory extinction. Neuron 79, 1109-1122 (2013).
-
(2013)
Neuron
, vol.79
, pp. 1109-1122
-
-
Rudenko, A.1
-
228
-
-
84884471932
-
TET1 controls CNS 5-methylcytosine hydroxylation, active DNA demethylation, gene transcription, and memory formation
-
Kaas, G. A. et al. TET1 controls CNS 5-methylcytosine hydroxylation, active DNA demethylation, gene transcription, and memory formation. Neuron 79, 1086-1093 (2013).
-
(2013)
Neuron
, vol.79
, pp. 1086-1093
-
-
Kaas, G.A.1
-
229
-
-
84925604811
-
Role of Tet1 and 5-hydroxymethylcytosine in cocaine action
-
Feng, J. et al. Role of Tet1 and 5-hydroxymethylcytosine in cocaine action. Nat. Neurosci. 18, 536-544 (2015).
-
(2015)
Nat. Neurosci.
, vol.18
, pp. 536-544
-
-
Feng, J.1
-
230
-
-
84900513301
-
Neocortical Tet3-mediated accumulation of 5-hydroxymethylcytosine promotes rapid behavioral adaptation
-
Li, X. et al. Neocortical Tet3-mediated accumulation of 5-hydroxymethylcytosine promotes rapid behavioral adaptation. Proc. Natl Acad. Sci. USA 111, 7120-7125 (2014).
-
(2014)
Proc. Natl Acad. Sci. USA
, vol.111
, pp. 7120-7125
-
-
Li, X.1
-
231
-
-
84929959512
-
Tet3 regulates synaptic transmission and homeostatic plasticity via DNA oxidation and repair
-
Yu, H. et al. Tet3 regulates synaptic transmission and homeostatic plasticity via DNA oxidation and repair. Nat.Neurosci. 18, 836-843 (2015).
-
(2015)
Nat.Neurosci.
, vol.18
, pp. 836-843
-
-
Yu, H.1
-
232
-
-
84953792068
-
Role of Tet1/3 genes and chromatin remodeling genes in cerebellar circuit formation
-
Zhu, X. et al. Role of Tet1/3 genes and chromatin remodeling genes in cerebellar circuit formation. Neuron 89, 100-112 (2016).
-
(2016)
Neuron
, vol.89
, pp. 100-112
-
-
Zhu, X.1
-
233
-
-
84933279135
-
Experience-dependent DNA methylation regulates plasticity in the developing visual cortex
-
Tognini, P. et al. Experience-dependent DNA methylation regulates plasticity in the developing visual cortex. Nat. Neurosci. 18, 956-958 (2015).
-
(2015)
Nat. Neurosci.
, vol.18
, pp. 956-958
-
-
Tognini, P.1
-
234
-
-
66249137734
-
Mutation in TET2 in myeloid cancers
-
Delhommeau, F. et al. Mutation in TET2 in myeloid cancers. N. Engl. J. Med. 360, 2289-2301 (2009).
-
(2009)
N. Engl. J. Med.
, vol.360
, pp. 2289-2301
-
-
Delhommeau, F.1
-
235
-
-
67649876132
-
Acquired mutations in TET2 are common in myelodysplastic syndromes
-
Langemeijer, S. M. et al. Acquired mutations in TET2 are common in myelodysplastic syndromes. Nat. Genet. 41, 838-842 (2009).
-
(2009)
Nat. Genet.
, vol.41
, pp. 838-842
-
-
Langemeijer, S.M.1
-
236
-
-
67651065502
-
Genetic characterization of TET1, TET2, and TET3 alterations in myeloid malignancies
-
Abdel-Wahab, O. et al. Genetic characterization of TET1, TET2, and TET3 alterations in myeloid malignancies. Blood 114, 144-147 (2009).
-
(2009)
Blood
, vol.114
, pp. 144-147
-
-
Abdel-Wahab, O.1
-
237
-
-
67650588639
-
Loss of heterozygosity 4q24 and TET2 mutations associated with myelodysplastic/ myeloproliferative neoplasms
-
Jankowska, A. M. et al. Loss of heterozygosity 4q24 and TET2 mutations associated with myelodysplastic/ myeloproliferative neoplasms. Blood 113, 6403-6410 (2009).
-
(2009)
Blood
, vol.113
, pp. 6403-6410
-
-
Jankowska, A.M.1
-
238
-
-
67349124376
-
TET2 mutations and their clinical correlates in polycythemia vera, essential thrombocythemia and myelofibrosis
-
Tefferi, A. et al. TET2 mutations and their clinical correlates in polycythemia vera, essential thrombocythemia and myelofibrosis. Leukemia 23, 905-911 (2009).
-
(2009)
Leukemia
, vol.23
, pp. 905-911
-
-
Tefferi, A.1
-
239
-
-
67349145955
-
Frequent TET2 mutations in systemic mastocytosis: Clinical, KITD816V and FIP1L1-PDGFRA correlates
-
Tefferi, A. et al. Frequent TET2 mutations in systemic mastocytosis: Clinical, KITD816V and FIP1L1-PDGFRA correlates. Leukemia 23, 900-904 (2009).
-
(2009)
Leukemia
, vol.23
, pp. 900-904
-
-
Tefferi, A.1
-
240
-
-
67650924270
-
Detection of mutant TET2 in myeloid malignancies other than myeloproliferative neoplasms: CMML, MDS, MDS/MPN and AML
-
Tefferi, A. et al. Detection of mutant TET2 in myeloid malignancies other than myeloproliferative neoplasms: CMML, MDS, MDS/MPN and AML. Leukemia 23, 1343-1345 (2009).
-
(2009)
Leukemia
, vol.23
, pp. 1343-1345
-
-
Tefferi, A.1
-
241
-
-
78650175023
-
Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2
-
Ko, M. et al. Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2. Nature 468, 839-843 (2010).
-
(2010)
Nature
, vol.468
, pp. 839-843
-
-
Ko, M.1
-
242
-
-
84962339365
-
Role of TET enzymes in DNA methylation, development, and cancer
-
Rasmussen, K. D. & Helin, K. Role of TET enzymes in DNA methylation, development, and cancer. Genes Dev. 30, 733-750 (2016).
-
(2016)
Genes Dev.
, vol.30
, pp. 733-750
-
-
Rasmussen, K.D.1
Helin, K.2
-
243
-
-
84929895270
-
TET1 is a tumor suppressor of hematopoietic malignancy
-
Cimmino, L. et al. TET1 is a tumor suppressor of hematopoietic malignancy. Nat. Immunol. 16, 653-662 (2015).
-
(2015)
Nat. Immunol.
, vol.16
, pp. 653-662
-
-
Cimmino, L.1
-
244
-
-
84952874773
-
Combined loss of Tet1 and Tet2 promotes B cell, but not myeloid malignancies, in mice
-
Zhao, Z. et al. Combined loss of Tet1 and Tet2 promotes B cell, but not myeloid malignancies, in mice. Cell Rep. 13, 1692-1704 (2015).
-
(2015)
Cell Rep.
, vol.13
, pp. 1692-1704
-
-
Zhao, Z.1
-
245
-
-
84873411803
-
Tumor development is associated with decrease of TET gene expression and 5-methylcytosine hydroxylation
-
Yang, H. et al. Tumor development is associated with decrease of TET gene expression and 5-methylcytosine hydroxylation. Oncogene 32, 663-669 (2013).
-
(2013)
Oncogene
, vol.32
, pp. 663-669
-
-
Yang, H.1
-
246
-
-
84856058152
-
Global 5-hydroxymethylcytosine content is significantly reduced in tissue stem/ progenitor cell compartments and in human cancers
-
Haffner, M. C. et al. Global 5-hydroxymethylcytosine content is significantly reduced in tissue stem/ progenitor cell compartments and in human cancers. Oncotarget 2, 627-637 (2011).
-
(2011)
Oncotarget
, vol.2
, pp. 627-637
-
-
Haffner, M.C.1
-
247
-
-
84964383428
-
Charting oxidized methylcytosines at base resolution
-
Wu, H. & Zhang, Y. Charting oxidized methylcytosines at base resolution. Nat. Struct. Mol. Biol. 22, 656-661 (2015).
-
(2015)
Nat. Struct. Mol. Biol.
, vol.22
, pp. 656-661
-
-
Wu, H.1
Zhang, Y.2
-
248
-
-
84902182150
-
Mechanism and function of oxidative reversal of DNA and RNA methylation
-
Shen, L., Song, C. X., He, C. & Zhang, Y. Mechanism and function of oxidative reversal of DNA and RNA methylation. Annu. Rev. Biochem. 83, 585-614 (2014).
-
(2014)
Annu. Rev. Biochem.
, vol.83
, pp. 585-614
-
-
Shen, L.1
Song, C.X.2
He, C.3
Zhang, Y.4
-
249
-
-
77749277177
-
The behaviour of 5-hydroxymethylcytosine in bisulfite sequencing
-
Huang, Y. et al. The behaviour of 5-hydroxymethylcytosine in bisulfite sequencing. PLoS ONE 5, e8888 (2010).
-
(2010)
PLoS ONE
, vol.5
, pp. e8888
-
-
Huang, Y.1
-
250
-
-
84899084088
-
Quantitative sequencing of 5-formylcytosine in DNA at single-base resolution
-
Booth, M. J., Marsico, G., Bachman, M., Beraldi, D. & Balasubramanian, S. Quantitative sequencing of 5-formylcytosine in DNA at single-base resolution. Nat. Chem. 6, 435-440 (2014).
-
(2014)
Nat. Chem.
, vol.6
, pp. 435-440
-
-
Booth, M.J.1
Marsico, G.2
Bachman, M.3
Beraldi, D.4
Balasubramanian, S.5
-
251
-
-
84879547408
-
Chemical modification-assisted bisulfite sequencing (CAB-Seq) for 5-carboxylcytosine detection in DNA
-
Lu, X. et al. Chemical modification-assisted bisulfite sequencing (CAB-Seq) for 5-carboxylcytosine detection in DNA. J. Am. Chem. Soc. 135, 9315-9317 (2013).
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 9315-9317
-
-
Lu, X.1
-
252
-
-
84994246278
-
Base-resolution analysis of 5-hydroxymethylcytosine by one-pot bisulfite-free chemical conversion with peroxotungstate
-
Hayashi, G. et al. Base-resolution analysis of 5-hydroxymethylcytosine by one-pot bisulfite-free chemical conversion with peroxotungstate. J. Am. Chem. Soc. 138, 14178-14181 (2016).
-
(2016)
J. Am. Chem. Soc.
, vol.138
, pp. 14178-14181
-
-
Hayashi, G.1
-
253
-
-
84964315195
-
RRHP: A tag-based approach for 5-hydroxymethylcytosine mapping at single-site resolution
-
Petterson, A., Chung, T. H., Tan, D., Sun, X. & Jia, X. Y. RRHP: A tag-based approach for 5-hydroxymethylcytosine mapping at single-site resolution. Genome Biol. 15, 456 (2014).
-
(2014)
Genome Biol.
, vol.15
, pp. 456
-
-
Petterson, A.1
Chung, T.H.2
Tan, D.3
Sun, X.4
Jia, X.Y.5
-
254
-
-
79960127277
-
Tissue-specific distribution and dynamic changes of 5-hydroxymethylcytosine in mammalian genomes
-
Kinney, S. M. et al. Tissue-specific distribution and dynamic changes of 5-hydroxymethylcytosine in mammalian genomes. J. Biol. Chem. 286, 24685-24693 (2011).
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 24685-24693
-
-
Kinney, S.M.1
-
255
-
-
84966264784
-
Single-CpG resolution mapping of 5-hydroxymethylcytosine by chemical labeling and exonuclease digestion identifies evolutionarily unconserved CpGs as TET targets
-
Serandour, A. A. et al. Single-CpG resolution mapping of 5-hydroxymethylcytosine by chemical labeling and exonuclease digestion identifies evolutionarily unconserved CpGs as TET targets. Genome Biol. 17, 56 (2016).
-
(2016)
Genome Biol.
, vol.17
, pp. 56
-
-
Serandour, A.A.1
-
256
-
-
84981312051
-
Single-cell 5hmC sequencing reveals chromosome-wide cell-to-cell variability and enables lineage reconstruction
-
Mooijman, D., Dey, S. S., Boisset, J. C., Crosetto, N. & van Oudenaarden, A. Single-cell 5hmC sequencing reveals chromosome-wide cell-to-cell variability and enables lineage reconstruction. Nat. Biotechnol. 34, 852-856 (2016).
-
(2016)
Nat. Biotechnol.
, vol.34
, pp. 852-856
-
-
Mooijman, D.1
Dey, S.S.2
Boisset, J.C.3
Crosetto, N.4
Van Oudenaarden, A.5
-
257
-
-
84979784066
-
A highly sensitive and robust method for genome-wide 5hmC profiling of rare cell populations
-
Han, D. et al. A highly sensitive and robust method for genome-wide 5hmC profiling of rare cell populations. Mol. Cell 63, 711-719 (2016).
-
(2016)
Mol. Cell
, vol.63
, pp. 711-719
-
-
Han, D.1
-
258
-
-
85013996853
-
TET1 modulates H4K16 acetylation by controlling auto-acetylation of hMOF to affect gene regulation and DNA repair function
-
Zhong, J. et al. TET1 modulates H4K16 acetylation by controlling auto-acetylation of hMOF to affect gene regulation and DNA repair function. Nucleic Acids Res. 45, 672-684 (2016).
-
(2016)
Nucleic Acids Res.
, vol.45
, pp. 672-684
-
-
Zhong, J.1
-
259
-
-
84942050633
-
Tet2 is required to resolve inflammation by recruiting Hdac2 to specifically repress IL-6
-
Zhang, Q. et al. Tet2 is required to resolve inflammation by recruiting Hdac2 to specifically repress IL-6. Nature 525, 389-393 (2015).
-
(2015)
Nature
, vol.525
, pp. 389-393
-
-
Zhang, Q.1
-
260
-
-
84872953223
-
TET2 promotes histone O-GlcNAcylation during gene transcription
-
Chen, Q., Chen, Y., Bian, C., Fujiki, R. & Yu, X. TET2 promotes histone O-GlcNAcylation during gene transcription. Nature 493, 561-564 (2013).
-
(2013)
Nature
, vol.493
, pp. 561-564
-
-
Chen, Q.1
Chen, Y.2
Bian, C.3
Fujiki, R.4
Yu, X.5
-
261
-
-
84875218124
-
TET2 and TET3 regulate GlcNAcylation and H3K4 methylation through OGT and SET1/COMPASS
-
Deplus, R. et al. TET2 and TET3 regulate GlcNAcylation and H3K4 methylation through OGT and SET1/COMPASS. EMBO J. 32, 645-655 (2013).
-
(2013)
EMBO J.
, vol.32
, pp. 645-655
-
-
Deplus, R.1
-
262
-
-
84903182472
-
TET1 is a maintenance DNA demethylase that prevents methylation spreading in differentiated cells
-
Jin, C. et al. TET1 is a maintenance DNA demethylase that prevents methylation spreading in differentiated cells. Nucleic Acids Res. 42, 6956-6971 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 6956-6971
-
-
Jin, C.1
-
263
-
-
84948446391
-
Acute loss of TET function results in aggressive myeloid cancer in mice
-
An, J. et al. Acute loss of TET function results in aggressive myeloid cancer in mice. Nat. Commun. 6, 10071 (2015).
-
(2015)
Nat. Commun.
, vol.6
, pp. 10071
-
-
An, J.1
-
264
-
-
84966602687
-
Tet enzymes regulate telomere maintenance and chromosomal stability of mouse ESCs
-
Yang, J. et al. Tet enzymes regulate telomere maintenance and chromosomal stability of mouse ESCs. Cell Rep. 15, 1809-1821 (2016).
-
(2016)
Cell Rep.
, vol.15
, pp. 1809-1821
-
-
Yang, J.1
-
265
-
-
84958103136
-
5-Hydroxymethylcytosine marks sites of DNA damage and promotes genome stability
-
Kafer, G. R. et al. 5-Hydroxymethylcytosine marks sites of DNA damage and promotes genome stability. Cell Rep. 14, 1283-1292 (2016).
-
(2016)
Cell Rep.
, vol.14
, pp. 1283-1292
-
-
Kafer, G.R.1
|