-
1
-
-
79959853681
-
A gene regulatory network controlling the embryonic specification of endoderm
-
Peter, I. S. and Davidson, E. H. (2011) A gene regulatory network controlling the embryonic specification of endoderm. Nature 474, 635-639
-
(2011)
Nature
, vol.474
, pp. 635-639
-
-
Peter, I.S.1
Davidson, E.H.2
-
2
-
-
79955473684
-
Operating on chromatin, a colorful language where context matters
-
Gardner, K. E., Allis, C. D. and Strahl, B. D. (2011) Operating on chromatin, a colorful language where context matters. J. Mol. Biol. 409, 36-46
-
(2011)
J. Mol. Biol.
, vol.409
, pp. 36-46
-
-
Gardner, K.E.1
Allis, C.D.2
Strahl, B.D.3
-
3
-
-
84861912630
-
Programming of DNA methylation patterns
-
Cedar, H. and Bergman, Y. (2012) Programming of DNA methylation patterns. Annu. Rev. Biochem. 81, 97-117
-
(2012)
Annu. Rev. Biochem.
, vol.81
, pp. 97-117
-
-
Cedar, H.1
Bergman, Y.2
-
4
-
-
79955637702
-
The dinucleotide CG as a genomic signalling module
-
Bird, A. (2011) The dinucleotide CG as a genomic signalling module. J. Mol. Biol. 409, 47-53
-
(2011)
J. Mol. Biol.
, vol.409
, pp. 47-53
-
-
Bird, A.1
-
5
-
-
37249026814
-
Genome-wide analysis of DNA methylation patterns
-
Zilberman, D. and Henikoff, S. (2007) Genome-wide analysis of DNA methylation patterns. Development 134, 3959-3965
-
(2007)
Development
, vol.134
, pp. 3959-3965
-
-
Zilberman, D.1
Henikoff, S.2
-
6
-
-
70450217879
-
Human DNA methylomes at base resolution show widespread epigenomic differences
-
Lister, R., Pelizzola, M., Dowen, R. H., Hawkins, R. D., Hon, G., Tonti-Filippini, J., Nery, J. R., Lee, L., Ye, Z., Ngo, Q. M. et al. (2009) Human DNA methylomes at base resolution show widespread epigenomic differences. Nature 462, 315-322
-
(2009)
Nature
, vol.462
, pp. 315-322
-
-
Lister, R.1
Pelizzola, M.2
Dowen, R.H.3
Hawkins, R.D.4
Hon, G.5
Tonti-Filippini, J.6
Nery, J.R.7
Lee, L.8
Ye, Z.9
Ngo, Q.M.10
-
7
-
-
77649267695
-
Dynamic changes in the human methylome during differentiation
-
Laurent, L., Wong, E., Li, G., Huynh, T., Tsirigos, A., Ong, C. T., Low, H. M., Kin Sung, K. W., Rigoutsos, I., Loring, J. and Wei, C. L. (2010) Dynamic changes in the human methylome during differentiation. Genome Res. 20, 320-331
-
(2010)
Genome Res
, vol.20
, pp. 320-331
-
-
Laurent, L.1
Wong, E.2
Li, G.3
Huynh, T.4
Tsirigos, A.5
Ong, C.T.6
Low, H.M.7
Kin Sung, K.W.8
Rigoutsos, I.9
Loring, J.10
Wei, C.L.11
-
8
-
-
78649969065
-
The DNA methylome of human peripheral blood mononuclear cells
-
Li, Y., Zhu, J., Tian, G., Li, N., Li, Q., Ye, M., Zheng, H., Yu, J., Wu, H., Sun, J. et al. (2010) The DNA methylome of human peripheral blood mononuclear cells. PLoS Biol. 8, e1000533
-
(2010)
PLoS Biol
, vol.8
-
-
Li, Y.1
Zhu, J.2
Tian, G.3
Li, N.4
Li, Q.5
Ye, M.6
Zheng, H.7
Yu, J.8
Wu, H.9
Sun, J.10
-
9
-
-
0034625064
-
Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a
-
Ramsahoye, B. H., Biniszkiewicz, D., Lyko, F., Clark, V., Bird, A. P. and Jaenisch, R. (2000) Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a. Proc. Natl. Acad. Sci. U.S.A. 97, 5237-5242
-
(2000)
Proc. Natl. Acad. Sci. U.S.A.
, vol.97
, pp. 5237-5242
-
-
Ramsahoye, B.H.1
Biniszkiewicz, D.2
Lyko, F.3
Clark, V.4
Bird, A.P.5
Jaenisch, R.6
-
10
-
-
84855281409
-
Genomic distribution and inter-sample variation of non-CpG methylation across human cell types
-
Ziller, M. J., Muller, F., Liao, J., Zhang, Y., Gu, H., Bock, C., Boyle, P., Epstein, C. B., Bernstein, B. E., Lengauer, T. et al. (2011) Genomic distribution and inter-sample variation of non-CpG methylation across human cell types. PLoS Genet. 7, e1002389
-
(2011)
PLoS Genet.
, vol.7
-
-
Ziller, M.J.1
Muller, F.2
Liao, J.3
Zhang, Y.4
Gu, H.5
Bock, C.6
Boyle, P.7
Epstein, C.B.8
Bernstein, B.E.9
Lengauer, T.10
-
11
-
-
49649125042
-
Genome-scale DNA methylation maps of pluripotent and differentiated cells
-
Meissner, A., Mikkelsen, T. S., Gu, H., Wernig, M., Hanna, J., Sivachenko, A., Zhang, X., Bernstein, B. E., Nusbaum, C., Jaffe, D. B. et al. (2008) Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature 454, 766-770
-
(2008)
Nature
, vol.454
, pp. 766-770
-
-
Meissner, A.1
Mikkelsen, T.S.2
Gu, H.3
Wernig, M.4
Hanna, J.5
Sivachenko, A.6
Zhang, X.7
Bernstein, B.E.8
Nusbaum, C.9
Jaffe, D.B.10
-
12
-
-
79956330964
-
CpG islands and the regulation of transcription
-
Deaton, A. M. and Bird, A. (2011) CpG islands and the regulation of transcription. Genes Dev. 25, 1010-1022
-
(2011)
Genes Dev.
, vol.25
, pp. 1010-1022
-
-
Deaton, A.M.1
Bird, A.2
-
13
-
-
38949212693
-
A novel CpG island set identifies tissue-specific methylation at developmental gene loci
-
Illingworth, R., Kerr, A., Desousa, D., Jorgensen, H., Ellis, P., Stalker, J., Jackson, D., Clee, C., Plumb, R., Rogers, J. et al. (2008) A novel CpG island set identifies tissue-specific methylation at developmental gene loci. PLoS Biol. 6, e22
-
(2008)
PLoS Biol.
, vol.6
-
-
Illingworth, R.1
Kerr, A.2
Desousa, D.3
Jorgensen, H.4
Ellis, P.5
Stalker, J.6
Jackson, D.7
Clee, C.8
Plumb, R.9
Rogers, J.10
-
14
-
-
84865369147
-
DNA methylation dynamics during in vivo differentiation of blood and skin stem cells
-
Bock, C., Beerman, I., Lien, W. H., Smith, Z. D., Gu, H., Boyle, P., Gnirke, A., Fuchs, E., Rossi, D. J. and Meissner, A. (2012) DNA methylation dynamics during in vivo differentiation of blood and skin stem cells. Mol. Cell 47, 633-647
-
(2012)
Mol. Cell
, vol.47
, pp. 633-647
-
-
Bock, C.1
Beerman, I.2
Lien, W.H.3
Smith, Z.D.4
Gu, H.5
Boyle, P.6
Gnirke, A.7
Fuchs, E.8
Rossi, D.J.9
Meissner, A.10
-
15
-
-
55549119925
-
Epigenetic restriction of embryonic cell lineage fate by methylation of Elf5
-
Ng, R. K., Dean, W., Dawson, C., Lucifero, D., Madeja, Z., Reik, W. and Hemberger, M. (2008) Epigenetic restriction of embryonic cell lineage fate by methylation of Elf5. Nat. Cell Biol. 10, 1280-1290
-
(2008)
Nat. Cell Biol.
, vol.10
, pp. 1280-1290
-
-
Ng, R.K.1
Dean, W.2
Dawson, C.3
Lucifero, D.4
Madeja, Z.5
Reik, W.6
Hemberger, M.7
-
16
-
-
70350654370
-
DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction
-
Broske, A. M., Vockentanz, L., Kharazi, S., Huska, M. R., Mancini, E., Scheller, M., Kuhl, C., Enns, A., Prinz, M., Jaenisch, R. et al. (2009) DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction. Nat. Genet. 41, 1207-1215
-
(2009)
Nat. Genet.
, vol.41
, pp. 1207-1215
-
-
Broske, A.M.1
Vockentanz, L.2
Kharazi, S.3
Huska, M.R.4
Mancini, E.5
Scheller, M.6
Kuhl, C.7
Enns, A.8
Prinz, M.9
Jaenisch, R.10
-
17
-
-
70349469788
-
DNA methyltransferase 1 is essential for and uniquely regulates hematopoietic stem and progenitor cells
-
Trowbridge, J. J., Snow, J. W., Kim, J. and Orkin, S. H. (2009) DNA methyltransferase 1 is essential for and uniquely regulates hematopoietic stem and progenitor cells. Cell Stem Cell 5, 442-449
-
(2009)
Cell Stem Cell
, vol.5
, pp. 442-449
-
-
Trowbridge, J.J.1
Snow, J.W.2
Kim, J.3
Orkin, S.H.4
-
18
-
-
75749104729
-
DNMT1 maintains progenitor function in self-renewing somatic tissue
-
Sen, G. L., Reuter, J. A., Webster, D. E., Zhu, L. and Khavari, P. A. (2010) DNMT1 maintains progenitor function in self-renewing somatic tissue. Nature 463, 563-567
-
(2010)
Nature
, vol.463
, pp. 563-567
-
-
Sen, G.L.1
Reuter, J.A.2
Webster, D.E.3
Zhu, L.4
Khavari, P.A.5
-
19
-
-
79954563768
-
Pancreatic β-cell identity is maintained by DNA methylation-mediated repression of Arx
-
Dhawan, S., Georgia, S., Tschen, S. I., Fan, G. and Bhushan, A. (2011) Pancreatic β-cell identity is maintained by DNA methylation-mediated repression of Arx. Dev. Cell 20, 419-429
-
(2011)
Dev. Cell
, vol.20
, pp. 419-429
-
-
Dhawan, S.1
Georgia, S.2
Tschen, S.I.3
Fan, G.4
Bhushan, A.5
-
20
-
-
34047116826
-
Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome
-
Weber, M., Hellmann, I., Stadler, M. B., Ramos, L., Paabo, S., Rebhan, M. and Schubeler, D. (2007) Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome. Nat. Genet. 39, 457-466
-
(2007)
Nat. Genet.
, vol.39
, pp. 457-466
-
-
Weber, M.1
Hellmann, I.2
Stadler, M.B.3
Ramos, L.4
Paabo, S.5
Rebhan, M.6
Schubeler, D.7
-
21
-
-
0034791175
-
Molecular mechanisms mediating methylation-dependent silencing of ribosomal gene transcription
-
Santoro, R. and Grummt, I. (2001) Molecular mechanisms mediating methylation-dependent silencing of ribosomal gene transcription. Mol. Cell 8, 719-725
-
(2001)
Mol. Cell
, vol.8
, pp. 719-725
-
-
Santoro, R.1
Grummt, I.2
-
22
-
-
0024081657
-
Cytosine methylation prevents binding to DNA of a HeLa cell transcription factor required for optimal expression of the adenovirus major late promoter
-
Watt, F. and Molloy, P. L. (1988) Cytosine methylation prevents binding to DNA of a HeLa cell transcription factor required for optimal expression of the adenovirus major late promoter. Genes Dev. 2, 1136-1143
-
(1988)
Genes Dev
, vol.2
, pp. 1136-1143
-
-
Watt, F.1
Molloy, P.L.2
-
23
-
-
79961022522
-
DNA methylation status predicts cell type-specific enhancer activity
-
Wiench, M., John, S., Baek, S., Johnson, T. A., Sung, M. H., Escobar, T., Simmons, C. A., Pearce, K. H., Biddie, S. C., Sabo, P. J. et al. (2011) DNA methylation status predicts cell type-specific enhancer activity. EMBO J. 30, 3028-3039
-
(2011)
EMBO J
, vol.30
, pp. 3028-3039
-
-
Wiench, M.1
John, S.2
Baek, S.3
Johnson, T.A.4
Sung, M.H.5
Escobar, T.6
Simmons, C.A.7
Pearce, K.H.8
Biddie, S.C.9
Sabo, P.J.10
-
24
-
-
32344450824
-
Genomic DNA methylation: The mark and its mediators
-
Klose, R. J. and Bird, A. P. (2006) Genomic DNA methylation: the mark and its mediators. Trends Biochem. Sci. 31, 89-97
-
(2006)
Trends Biochem. Sci.
, vol.31
, pp. 89-97
-
-
Klose, R.J.1
Bird, A.P.2
-
25
-
-
0024342686
-
Identification of a mammalian protein that binds specifically to DNA containing methylated CpGs
-
Meehan, R. R., Lewis, J. D., McKay, S., Kleiner, E. L. and Bird, A. P. (1989) Identification of a mammalian protein that binds specifically to DNA containing methylated CpGs. Cell 58, 499-507
-
(1989)
Cell
, vol.58
, pp. 499-507
-
-
Meehan, R.R.1
Lewis, J.D.2
McKay, S.3
Kleiner, E.L.4
Bird, A.P.5
-
26
-
-
0026658662
-
Characterization of MeCP2, a vertebrate DNA binding protein with affinity for methylated DNA
-
Meehan, R. R., Lewis, J. D. and Bird, A. P. (1992) Characterization of MeCP2, a vertebrate DNA binding protein with affinity for methylated DNA. Nucleic Acids Res. 20, 5085-5092
-
(1992)
Nucleic Acids Res
, vol.20
, pp. 5085-5092
-
-
Meehan, R.R.1
Lewis, J.D.2
Bird, A.P.3
-
27
-
-
0027378582
-
Role for DNA methylation in genomic imprinting
-
Li, E., Beard, C. and Jaenisch, R. (1993) Role for DNA methylation in genomic imprinting. Nature 366, 362-365
-
(1993)
Nature
, vol.366
, pp. 362-365
-
-
Li, E.1
Beard, C.2
Jaenisch, R.3
-
28
-
-
0035158704
-
Loss of genomic methylation causes p53-dependent apoptosis and epigenetic deregulation
-
Jackson-Grusby, L., Beard, C., Possemato, R., Tudor, M., Fambrough, D., Csankovszki, G., Dausman, J., Lee, P., Wilson, C., Lander, E. and Jaenisch, R. (2001) Loss of genomic methylation causes p53-dependent apoptosis and epigenetic deregulation. Nat. Genet. 27, 31-39
-
(2001)
Nat. Genet.
, vol.27
, pp. 31-39
-
-
Jackson-Grusby, L.1
Beard, C.2
Possemato, R.3
Tudor, M.4
Fambrough, D.5
Csankovszki, G.6
Dausman, J.7
Lee, P.8
Wilson, C.9
Lander, E.10
Jaenisch, R.11
-
29
-
-
3042584653
-
Essential role for de novo DNA methyltransferase Dnmt3a in paternal and maternal imprinting
-
Kaneda, M., Okano, M., Hata, K., Sado, T., Tsujimoto, N., Li, E. and Sasaki, H. (2004) Essential role for de novo DNA methyltransferase Dnmt3a in paternal and maternal imprinting. Nature 429, 900-903
-
(2004)
Nature
, vol.429
, pp. 900-903
-
-
Kaneda, M.1
Okano, M.2
Hata, K.3
Sado, T.4
Tsujimoto, N.5
Li, E.6
Sasaki, H.7
-
30
-
-
80053545055
-
DNA methylation profiles of human active and inactive X chromosomes
-
Sharp, A. J., Stathaki, E., Migliavacca, E., Brahmachary, M., Montgomery, S. B., Dupre, Y. and Antonarakis, S. E. (2011) DNA methylation profiles of human active and inactive X chromosomes. Genome Res. 21, 1592-1600
-
(2011)
Genome Res
, vol.21
, pp. 1592-1600
-
-
Sharp, A.J.1
Stathaki, E.2
Migliavacca, E.3
Brahmachary, M.4
Montgomery, S.B.5
Dupre, Y.6
Antonarakis, S.E.7
-
31
-
-
0034665756
-
X inactivation in the mouse embryo deficient for Dnmt1: Distinct effect of hypomethylation on imprinted and random X inactivation
-
Sado, T., Fenner, M. H., Tan, S. S., Tam, P., Shioda, T. and Li, E. (2000) X inactivation in the mouse embryo deficient for Dnmt1: distinct effect of hypomethylation on imprinted and random X inactivation. Dev. Biol. 225, 294-303
-
(2000)
Dev. Biol.
, vol.225
, pp. 294-303
-
-
Sado, T.1
Fenner, M.H.2
Tan, S.S.3
Tam, P.4
Shioda, T.5
Li, E.6
-
32
-
-
34249692514
-
Role of DNA methylation in stable gene repression
-
Lande-Diner, L., Zhang, J., Ben-Porath, I., Amariglio, N., Keshet, I., Hecht, M., Azuara, V., Fisher, A. G., Rechavi, G. and Cedar, H. (2007) Role of DNA methylation in stable gene repression. J. Biol. Chem. 282, 12194-12200
-
(2007)
J. Biol. Chem.
, vol.282
, pp. 12194-12200
-
-
Lande-Diner, L.1
Zhang, J.2
Ben-Porath, I.3
Amariglio, N.4
Keshet, I.5
Hecht, M.6
Azuara, V.7
Fisher, A.G.8
Rechavi, G.9
Cedar, H.10
-
33
-
-
38649126918
-
Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation
-
Fouse, S. D., Shen, Y., Pellegrini, M., Cole, S., Meissner, A., Van Neste, L., Jaenisch, R. and Fan, G. (2008) Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation. Cell Stem Cell 2, 160-169
-
(2008)
Cell Stem Cell
, vol.2
, pp. 160-169
-
-
Fouse, S.D.1
Shen, Y.2
Pellegrini, M.3
Cole, S.4
Meissner, A.5
Van Neste, L.6
Jaenisch, R.7
Fan, G.8
-
34
-
-
35948981875
-
Genome-wide profiling of DNA methylation reveals a class of normally methylated CpG island promoters
-
Shen, L., Kondo, Y., Guo, Y., Zhang, J., Zhang, L., Ahmed, S., Shu, J., Chen, X., Waterland, R. A. and Issa, J. P. (2007) Genome-wide profiling of DNA methylation reveals a class of normally methylated CpG island promoters. PLoS Genet. 3, 2023-2036
-
(2007)
PLoS Genet
, vol.3
, pp. 2023-2036
-
-
Shen, L.1
Kondo, Y.2
Guo, Y.3
Zhang, J.4
Zhang, L.5
Ahmed, S.6
Shu, J.7
Chen, X.8
Waterland, R.A.9
Issa, J.P.10
-
35
-
-
78649459828
-
Targets and dynamics of promoter DNA methylation during early mouse development
-
Borgel, J., Guibert, S., Li, Y., Chiba, H., Schubeler, D., Sasaki, H., Forne, T. and Weber, M. (2010) Targets and dynamics of promoter DNA methylation during early mouse development. Nat. Genet. 42, 1093-1100
-
(2010)
Nat. Genet.
, vol.42
, pp. 1093-1100
-
-
Borgel, J.1
Guibert, S.2
Li, Y.3
Chiba, H.4
Schubeler, D.5
Sasaki, H.6
Forne, T.7
Weber, M.8
-
36
-
-
77952695371
-
Dnmt3b recruitment through E2F6 transcriptional repressor mediates germ-line gene silencing in murine somatic tissues
-
Velasco, G., Hube, F., Rollin, J., Neuillet, D., Philippe, C., Bouzinba-Segard, H., Galvani, A., Viegas-Pequignot, E. and Francastel, C. (2010) Dnmt3b recruitment through E2F6 transcriptional repressor mediates germ-line gene silencing in murine somatic tissues. Proc. Natl. Acad. Sci. U.S.A. 107, 9281-9286
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 9281-9286
-
-
Velasco, G.1
Hube, F.2
Rollin, J.3
Neuillet, D.4
Philippe, C.5
Bouzinba-Segard, H.6
Galvani, A.7
Viegas-Pequignot, E.8
Francastel, C.9
-
37
-
-
84865843074
-
Promoter DNA methylation couples genome-defence mechanisms to epigenetic reprogramming in the mouse germline
-
Hackett, J. A., Reddington, J. P., Nestor, C. E., Dunican, D. S., Branco, M. R., Reichmann, J., Reik, W., Surani, M. A., Adams, I. R. and Meehan, R. R. (2012) Promoter DNA methylation couples genome-defence mechanisms to epigenetic reprogramming in the mouse germline. Development 139, 3623-3632
-
(2012)
Development
, vol.139
, pp. 3623-3632
-
-
Hackett, J.A.1
Reddington, J.P.2
Nestor, C.E.3
Dunican, D.S.4
Branco, M.R.5
Reichmann, J.6
Reik, W.7
Surani, M.A.8
Adams, I.R.9
Meehan, R.R.10
-
38
-
-
84863672039
-
DNA demethylation and USF regulate the meiosis-specific expression of the mouse Miwi
-
Hou, Y., Yuan, J., Zhou, X., Fu, X., Cheng, H. and Zhou, R. (2012) DNA demethylation and USF regulate the meiosis-specific expression of the mouse Miwi. PLoS Genet. 8, e1002716
-
(2012)
PLoS Genet.
, vol.8
-
-
Hou, Y.1
Yuan, J.2
Zhou, X.3
Fu, X.4
Cheng, H.5
Zhou, R.6
-
39
-
-
55549145072
-
De novo DNA methylation promoted by G9a prevents reprogramming of embryonically silenced genes
-
Epsztejn-Litman, S., Feldman, N., Abu-Remaileh, M., Shufaro, Y., Gerson, A., Ueda, J., Deplus, R., Fuks, F., Shinkai, Y., Cedar, H. and Bergman, Y. (2008) De novo DNA methylation promoted by G9a prevents reprogramming of embryonically silenced genes. Nat. Struct. Mol. Biol. 15, 1176-1183
-
(2008)
Nat. Struct. Mol. Biol.
, vol.15
, pp. 1176-1183
-
-
Epsztejn-Litman, S.1
Feldman, N.2
Abu-Remaileh, M.3
Shufaro, Y.4
Gerson, A.5
Ueda, J.6
Deplus, R.7
Fuks, F.8
Shinkai, Y.9
Cedar, H.10
Bergman, Y.11
-
40
-
-
79952716583
-
Transcriptionally repressed genes become aberrantly methylated and distinguish tumors of different lineages in breast cancer
-
Sproul, D., Nestor, C., Culley, J., Dickson, J. H., Dixon, J. M., Harrison, D. J., Meehan, R. R., Sims, A. H. and Ramsahoye, B. H. (2011) Transcriptionally repressed genes become aberrantly methylated and distinguish tumors of different lineages in breast cancer. Proc. Natl. Acad. Sci. U.S.A. 108, 4364-4369
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, pp. 4364-4369
-
-
Sproul, D.1
Nestor, C.2
Culley, J.3
Dickson, J.H.4
Dixon, J.M.5
Harrison, D.J.6
Meehan, R.R.7
Sims, A.H.8
Ramsahoye, B.H.9
-
41
-
-
33646471380
-
DNA methylation supports intrinsic epigenetic memory in mammalian cells
-
Feng, Y. Q., Desprat, R., Fu, H., Olivier, E., Lin, C. M., Lobell, A., Gowda, S. N., Aladjem, M. I. and Bouhassira, E. E. (2006) DNA methylation supports intrinsic epigenetic memory in mammalian cells. PLoS Genet. 2, e65
-
(2006)
PLoS Genet
, vol.2
-
-
Feng, Y.Q.1
Desprat, R.2
Fu, H.3
Olivier, E.4
Lin, C.M.5
Lobell, A.6
Gowda, S.N.7
Aladjem, M.I.8
Bouhassira, E.E.9
-
42
-
-
33845880624
-
Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription
-
Zilberman, D., Gehring, M., Tran, R. K., Ballinger, T. and Henikoff, S. (2007) Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription. Nat. Genet. 39, 61-69
-
(2007)
Nat. Genet.
, vol.39
, pp. 61-69
-
-
Zilberman, D.1
Gehring, M.2
Tran, R.K.3
Ballinger, T.4
Henikoff, S.5
-
43
-
-
0030885667
-
DNA methylation inhibits elongation but not initiation of transcription in Neurospora crassa
-
Rountree, M. R. and Selker, E. U. (1997) DNA methylation inhibits elongation but not initiation of transcription in Neurospora crassa . Genes Dev. 11, 2383-2395
-
(1997)
Genes Dev
, vol.11
, pp. 2383-2395
-
-
Rountree, M.R.1
Selker, E.U.2
-
44
-
-
58849091905
-
A human B cell methylome at 100-base pair resolution
-
Rauch, T. A., Wu, X., Zhong, X., Riggs, A. D. and Pfeifer, G. P. (2009) A human B cell methylome at 100-base pair resolution. Proc. Natl. Acad. Sci. U.S.A. 106, 671-678
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 671-678
-
-
Rauch, T.A.1
Wu, X.2
Zhong, X.3
Riggs, A.D.4
Pfeifer, G.P.5
-
45
-
-
64349091471
-
Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells
-
Ball, M. P., Li, J. B., Gao, Y., Lee, J. H., LeProust, E. M., Park, I. H., Xie, B., Daley, G. Q. and Church, G. M. (2009) Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells. Nat. Biotechnol. 27, 361-368
-
(2009)
Nat. Biotechnol.
, vol.27
, pp. 361-368
-
-
Ball, M.P.1
Li, J.B.2
Gao, Y.3
Lee, J.H.4
Le Proust, E.M.5
Park, I.H.6
Xie, B.7
Daley, G.Q.8
Church, G.M.9
-
46
-
-
78751693154
-
Replication timing-related and gene body-specific methylation of active human genes
-
Aran, D., Toperoff, G., Rosenberg, M. and Hellman, A. (2011) Replication timing-related and gene body-specific methylation of active human genes. Hum. Mol. Genet. 20, 670-680
-
(2011)
Hum. Mol. Genet.
, vol.20
, pp. 670-680
-
-
Aran, D.1
Toperoff, G.2
Rosenberg, M.3
Hellman, A.4
-
47
-
-
33847304609
-
Gene body-specific methylation on the active X chromosome
-
Hellman, A. and Chess, A. (2007) Gene body-specific methylation on the active X chromosome. Science 315, 1141-1143
-
(2007)
Science
, vol.315
, pp. 1141-1143
-
-
Hellman, A.1
Chess, A.2
-
48
-
-
77956193814
-
The Dnmt3a PWWP domain reads histone 3 lysine 36 trimethylation and guides DNA methylation
-
Dhayalan, A., Rajavelu, A., Rathert, P., Tamas, R., Jurkowska, R. Z., Ragozin, S. and Jeltsch, A. (2010) The Dnmt3a PWWP domain reads histone 3 lysine 36 trimethylation and guides DNA methylation. J. Biol. Chem. 285, 26114-26120
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 26114-26120
-
-
Dhayalan, A.1
Rajavelu, A.2
Rathert, P.3
Tamas, R.4
Jurkowska, R.Z.5
Ragozin, S.6
Jeltsch, A.7
-
49
-
-
0037336041
-
Phosphorylation of RNA polymerase II CTD regulates H3 methylation in yeast
-
Xiao, T., Hall, H., Kizer, K. O., Shibata, Y., Hall, M. C., Borchers, C. H. and Strahl, B. D. (2003) Phosphorylation of RNA polymerase II CTD regulates H3 methylation in yeast. Genes Dev. 17, 654-663
-
(2003)
Genes Dev.
, vol.17
, pp. 654-663
-
-
Xiao, T.1
Hall, H.2
Kizer, K.O.3
Shibata, Y.4
Hall, M.C.5
Borchers, C.H.6
Strahl, B.D.7
-
50
-
-
33751505540
-
DNA methylation profiling of human chromosomes 6, 20 and 22
-
Eckhardt, F., Lewin, J., Cortese, R., Rakyan, V. K., Attwood, J., Burger, M., Burton, J., Cox, T. V., Davies, R., Down, T. A. et al. (2006) DNA methylation profiling of human chromosomes 6, 20 and 22. Nat. Genet. 38, 1378-1385
-
(2006)
Nat. Genet.
, vol.38
, pp. 1378-1385
-
-
Eckhardt, F.1
Lewin, J.2
Cortese, R.3
Rakyan, V.K.4
Attwood, J.5
Burger, M.6
Burton, J.7
Cox, T.V.8
Davies, R.9
Down, T.A.10
-
51
-
-
78049419464
-
Orphan CpG islands identify numerous conserved promoters in the mammalian genome
-
Illingworth, R. S., Gruenewald-Schneider, U., Webb, S., Kerr, A. R., James, K. D., Turner, D. J., Smith, C., Harrison, D. J., Andrews, R. and Bird, A. P. (2010) Orphan CpG islands identify numerous conserved promoters in the mammalian genome. PLoS Genet. 6, e1001134
-
(2010)
PLoS Genet
, vol.6
-
-
Illingworth, R.S.1
Gruenewald-Schneider, U.2
Webb, S.3
Kerr, A.R.4
James, K.D.5
Turner, D.J.6
Smith, C.7
Harrison, D.J.8
Andrews, R.9
Bird, A.P.10
-
52
-
-
77954504873
-
Conserved role of intragenic DNA methylation in regulating alternative promoters
-
Maunakea, A. K., Nagarajan, R. P., Bilenky, M., Ballinger, T. J., D'Souza, C., Fouse, S. D., Johnson, B. E., Hong, C., Nielsen, C., Zhao, Y. et al. (2010) Conserved role of intragenic DNA methylation in regulating alternative promoters. Nature 466, 253-257
-
(2010)
Nature
, vol.466
, pp. 253-257
-
-
Maunakea, A.K.1
Nagarajan, R.P.2
Bilenky, M.3
Ballinger, T.J.4
D'Souza, C.5
Fouse, S.D.6
Johnson, B.E.7
Hong, C.8
Nielsen, C.9
Zhao, Y.10
-
53
-
-
77953809032
-
Distinct epigenomic landscapes of pluripotent and lineage-committed human cells
-
Hawkins, R. D., Hon, G. C., Lee, L. K., Ngo, Q., Lister, R., Pelizzola, M., Edsall, L. E., Kuan, S., Luu, Y., Klugman, S. et al. (2010) Distinct epigenomic landscapes of pluripotent and lineage-committed human cells. Cell Stem Cell 6, 479-491
-
(2010)
Cell Stem Cell
, vol.6
, pp. 479-491
-
-
Hawkins, R.D.1
Hon, G.C.2
Lee, L.K.3
Ngo, Q.4
Lister, R.5
Pelizzola, M.6
Edsall, L.E.7
Kuan, S.8
Luu, Y.9
Klugman, S.10
-
54
-
-
84857891830
-
Tissue type is a major modifier of the 5-hydroxymethylcytosine content of human genes
-
Nestor, C. E., Ottaviano, R., Reddington, J., Sproul, D., Reinhardt, D., Dunican, D., Katz, E., Dixon, J. M., Harrison, D. J. and Meehan, R. R. (2012) Tissue type is a major modifier of the 5-hydroxymethylcytosine content of human genes. Genome Res. 22, 467-477
-
(2012)
Genome Res
, vol.22
, pp. 467-477
-
-
Nestor, C.E.1
Ottaviano, R.2
Reddington, J.3
Sproul, D.4
Reinhardt, D.5
Dunican, D.6
Katz, E.7
Dixon, J.M.8
Harrison, D.J.9
Meehan, R.R.10
-
55
-
-
77954061853
-
Enzymatic approaches and bisulfite sequencing cannot distinguish between 5-methylcytosine and 5-hydroxymethylcytosine in DNA
-
Nestor, C., Ruzov, A., Meehan, R. and Dunican, D. (2010) Enzymatic approaches and bisulfite sequencing cannot distinguish between 5-methylcytosine and 5-hydroxymethylcytosine in DNA. Biotechniques 48, 317-319
-
(2010)
Biotechniques
, vol.48
, pp. 317-319
-
-
Nestor, C.1
Ruzov, A.2
Meehan, R.3
Dunican, D.4
-
56
-
-
84867137051
-
Chromatin and epigenetic regulation of pre-mRNA processing
-
Brown, S. J., Stoilov, P. and Xing, Y. (2012) Chromatin and epigenetic regulation of pre-mRNA processing. Hum. Mol. Genet. 21, R90-R96
-
(2012)
Hum. Mol. Genet.
, vol.21
-
-
Brown, S.J.1
Stoilov, P.2
Xing, Y.3
-
57
-
-
84866145900
-
Genome-wide association between DNA methylation and alternative splicing in an invertebrate
-
Flores, K. B., Wolschin, F., Allen, A. N., Corneveaux, J. J., Huentelman, M. and Amdam, G. V. (2012) Genome-wide association between DNA methylation and alternative splicing in an invertebrate. BMC Genomics 13, 480
-
(2012)
BMC Genomics
, vol.13
, pp. 480
-
-
Flores, K.B.1
Wolschin, F.2
Allen, A.N.3
Corneveaux, J.J.4
Huentelman, M.5
Amdam, G.V.6
-
58
-
-
84859465140
-
DNA methylation dynamics, metabolic fluxes, gene splicing, and alternative phenotypes in honey bees
-
Foret, S., Kucharski, R., Pellegrini, M., Feng, S., Jacobsen, S. E., Robinson, G. E. and Maleszka, R. (2012) DNA methylation dynamics, metabolic fluxes, gene splicing, and alternative phenotypes in honey bees. Proc. Natl. Acad. Sci. U.S.A. 109, 4968-4973
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 4968-4973
-
-
Foret, S.1
Kucharski, R.2
Pellegrini, M.3
Feng, S.4
Jacobsen, S.E.5
Robinson, G.E.6
Maleszka, R.7
-
59
-
-
80455176999
-
CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing
-
Shukla, S., Kavak, E., Gregory, M., Imashimizu, M., Shutinoski, B., Kashlev, M., Oberdoerffer, P., Sandberg, R. and Oberdoerffer, S. (2011) CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing. Nature 479, 74-79
-
(2011)
Nature
, vol.479
, pp. 74-79
-
-
Shukla, S.1
Kavak, E.2
Gregory, M.3
Imashimizu, M.4
Shutinoski, B.5
Kashlev, M.6
Oberdoerffer, P.7
Sandberg, R.8
Oberdoerffer, S.9
-
60
-
-
0025266610
-
Alternative chromatin structure at CpG islands
-
Tazi, J. and Bird, A. (1990) Alternative chromatin structure at CpG islands. Cell 60, 909-920
-
(1990)
Cell
, vol.60
, pp. 909-920
-
-
Tazi, J.1
Bird, A.2
-
61
-
-
77951116072
-
CpG islands influence chromatin structure via the CpG-binding protein Cfp1
-
Thomson, J. P., Skene, P. J., Selfridge, J., Clouaire, T., Guy, J., Webb, S., Kerr, A. R., Deaton, A., Andrews, R., James, K. D. et al. (2010) CpG islands influence chromatin structure via the CpG-binding protein Cfp1. Nature 464, 1082-1086
-
(2010)
Nature
, vol.464
, pp. 1082-1086
-
-
Thomson, J.P.1
Skene, P.J.2
Selfridge, J.3
Clouaire, T.4
Guy, J.5
Webb, S.6
Kerr, A.R.7
Deaton, A.8
Andrews, R.9
James, K.D.10
-
62
-
-
77950882645
-
CpG islands recruit a histone H3 lysine 36 demethylase
-
Blackledge, N. P., Zhou, J. C., Tolstorukov, M. Y., Farcas, A. M., Park, P. J. and Klose, R. J. (2010) CpG islands recruit a histone H3 lysine 36 demethylase. Mol. Cell 38, 179-190
-
(2010)
Mol. Cell
, vol.38
, pp. 179-190
-
-
Blackledge, N.P.1
Zhou, J.C.2
Tolstorukov, M.Y.3
Farcas, A.M.4
Park, P.J.5
Klose, R.J.6
-
63
-
-
77957257570
-
CpG island clusters and pro-epigenetic selection for CpGs in protein-coding exons of HOX and other transcription factors
-
Branciamore, S., Chen, Z. X., Riggs, A. D. and Rodin, S. N. (2010) CpG island clusters and pro-epigenetic selection for CpGs in protein-coding exons of HOX and other transcription factors. Proc. Natl. Acad. Sci. U.S.A. 107, 15485-15490
-
(2010)
Proc. Natl. Acad. Sci. U.S.A.
, vol.107
, pp. 15485-15490
-
-
Branciamore, S.1
Chen, Z.X.2
Riggs, A.D.3
Rodin, S.N.4
-
64
-
-
59149084538
-
The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores
-
Irizarry, R. A., Ladd-Acosta, C., Wen, B., Wu, Z., Montano, C., Onyango, P., Cui, H., Gabo, K., Rongione, M., Webster, M. et al. (2009) The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nat. Genet. 41, 178-186
-
(2009)
Nat. Genet.
, vol.41
, pp. 178-186
-
-
Irizarry, R.A.1
Ladd-Acosta, C.2
Wen, B.3
Wu, Z.4
Montano, C.5
Onyango, P.6
Cui, H.7
Gabo, K.8
Rongione, M.9
Webster, M.10
-
65
-
-
70649095120
-
Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts
-
Doi, A., Park, I. H., Wen, B., Murakami, P., Aryee, M. J., Irizarry, R., Herb, B., Ladd-Acosta, C., Rho, J., Loewer, S. et al. (2009) Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts. Nat. Genet. 41, 1350-1353
-
(2009)
Nat. Genet.
, vol.41
, pp. 1350-1353
-
-
Doi, A.1
Park, I.H.2
Wen, B.3
Murakami, P.4
Aryee, M.J.5
Irizarry, R.6
Herb, B.7
Ladd-Acosta, C.8
Rho, J.9
Loewer, S.10
-
66
-
-
77956902023
-
Comprehensive methylome map of lineage commitment from haematopoietic progenitors
-
Ji, H., Ehrlich, L. I., Seita, J., Murakami, P., Doi, A., Lindau, P., Lee, H., Aryee, M. J., Irizarry, R. A., Kim, K. et al. (2010) Comprehensive methylome map of lineage commitment from haematopoietic progenitors. Nature 467, 338-342
-
(2010)
Nature
, vol.467
, pp. 338-342
-
-
Ji, H.1
Ehrlich, L.I.2
Seita, J.3
Murakami, P.4
Doi, A.5
Lindau, P.6
Lee, H.7
Aryee, M.J.8
Irizarry, R.A.9
Kim, K.10
-
67
-
-
0043178993
-
A mutant form of MeCP2 protein associated with human Rett syndrome cannot be displaced from methylated DNA by notch in Xenopus embryos
-
Stancheva, I., Collins, A. L., Van den Veyver, I. B., Zoghbi, H. and Meehan, R. R. (2003) A mutant form of MeCP2 protein associated with human Rett syndrome cannot be displaced from methylated DNA by notch in Xenopus embryos. Mol. Cell 12, 425-435
-
(2003)
Mol. Cell
, vol.12
, pp. 425-435
-
-
Stancheva, I.1
Collins, A.L.2
Van Den Veyver, I.B.3
Zoghbi, H.4
Meehan, R.R.5
-
68
-
-
84355163093
-
DNA-binding factors shape the mouse methylome at distal regulatory regions
-
Stadler, M. B., Murr, R., Burger, L., Ivanek, R., Lienert, F., Scholer, A., van Nimwegen, E., Wirbelauer, C., Oakeley, E. J., Gaidatzis, D. et al. (2011) DNA-binding factors shape the mouse methylome at distal regulatory regions. Nature 480, 490-495
-
(2011)
Nature
, vol.480
, pp. 490-495
-
-
Stadler, M.B.1
Murr, R.2
Burger, L.3
Ivanek, R.4
Lienert, F.5
Scholer, A.6
Van Nimwegen, E.7
Wirbelauer, C.8
Oakeley, E.J.9
Gaidatzis, D.10
-
69
-
-
84865755978
-
The accessible chromatin landscape of the human genome
-
Thurman, R. E., Rynes, E., Humbert, R., Vierstra, J., Maurano, M. T., Haugen, E., Sheffield, N. C., Stergachis, A. B., Wang, H., Vernot, B. et al. (2012) The accessible chromatin landscape of the human genome. Nature 489, 75-82
-
(2012)
Nature
, vol.489
, pp. 75-82
-
-
Thurman, R.E.1
Rynes, E.2
Humbert, R.3
Vierstra, J.4
Maurano, M.T.5
Haugen, E.6
Sheffield, N.C.7
Stergachis, A.B.8
Wang, H.9
Vernot, B.10
-
70
-
-
80052918929
-
Directional DNA methylation changes and complex intermediate states accompany lineage specificity in the adult hematopoietic compartment
-
Hodges, E., Molaro, A., Dos Santos, C. O., Thekkat, P., Song, Q., Uren, P. J., Park, J., Butler, J., Rafii, S., McCombie, W. R. et al. (2011) Directional DNA methylation changes and complex intermediate states accompany lineage specificity in the adult hematopoietic compartment. Mol. Cell 44, 17-28
-
(2011)
Mol. Cell
, vol.44
, pp. 17-28
-
-
Hodges, E.1
Molaro, A.2
Dos Santos, C.O.3
Thekkat, P.4
Song, Q.5
Uren, P.J.6
Park, J.7
Butler, J.8
Rafii, S.9
McCombie, W.R.10
-
71
-
-
67650090496
-
Lineage-specific DNA methylation in T cells correlates with histone methylation and enhancer activity
-
Schmidl, C., Klug, M., Boeld, T. J., Andreesen, R., Hoffmann, P., Edinger, M. and Rehli, M. (2009) Lineage-specific DNA methylation in T cells correlates with histone methylation and enhancer activity. Genome Res. 19, 1165-1174
-
(2009)
Genome Res.
, vol.19
, pp. 1165-1174
-
-
Schmidl, C.1
Klug, M.2
Boeld, T.J.3
Andreesen, R.4
Hoffmann, P.5
Edinger, M.6
Rehli, M.7
-
72
-
-
80054994283
-
Identification of genetic elements that autonomously determine DNA methylation states
-
Lienert, F., Wirbelauer, C., Som, I., Dean, A., Mohn, F. and Schubeler, D. (2011) Identification of genetic elements that autonomously determine DNA methylation states. Nat. Genet. 43, 1091-1097
-
(2011)
Nat. Genet.
, vol.43
, pp. 1091-1097
-
-
Lienert, F.1
Wirbelauer, C.2
Som, I.3
Dean, A.4
Mohn, F.5
Schubeler, D.6
-
73
-
-
80053493397
-
Large-scale methylation domains mark a functional subset of neuronally expressed genes
-
Schroeder, D. I., Lott, P., Korf, I. and LaSalle, J. M. (2011) Large-scale methylation domains mark a functional subset of neuronally expressed genes. Genome Res. 21, 1583-1591
-
(2011)
Genome Res
, vol.21
, pp. 1583-1591
-
-
Schroeder, D.I.1
Lott, P.2
Korf, I.3
Lasalle, J.M.4
-
74
-
-
84655162785
-
Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains
-
Berman, B. P., Weisenberger, D. J., Aman, J. F., Hinoue, T., Ramjan, Z., Liu, Y., Noushmehr, H., Lange, C. P., van Dijk, C. M., Tollenaar, R. A. et al. (2012) Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains. Nat. Genet. 44, 40-46
-
(2012)
Nat. Genet.
, vol.44
, pp. 40-46
-
-
Berman, B.P.1
Weisenberger, D.J.2
Aman, J.F.3
Hinoue, T.4
Ramjan, Z.5
Liu, Y.6
Noushmehr, H.7
Lange, C.P.8
Van Dijk, C.M.9
Tollenaar, R.A.10
-
75
-
-
84856528270
-
Global DNA hypomethylation coupled to repressive chromatin domain formation and gene silencing in breast cancer
-
Hon, G. C., Hawkins, R. D., Caballero, O. L., Lo, C., Lister, R., Pelizzola, M., Valsesia, A., Ye, Z., Kuan, S., Edsall, L. E. et al. (2012) Global DNA hypomethylation coupled to repressive chromatin domain formation and gene silencing in breast cancer. Genome Res. 22, 246-258
-
(2012)
Genome Res
, vol.22
, pp. 246-258
-
-
Hon, G.C.1
Hawkins, R.D.2
Caballero, O.L.3
Lo, C.4
Lister, R.5
Pelizzola, M.6
Valsesia, A.7
Ye, Z.8
Kuan, S.9
Edsall, L.E.10
-
76
-
-
66149146320
-
Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1
-
Tahiliani, M., Koh, K. P., Shen, Y., Pastor, W. A., Bandukwala, H., Brudno, Y., Agarwal, S., Iyer, L. M., Liu, D. R., Aravind, L. and Rao, A. (2009) Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science 324, 930-935
-
(2009)
Science
, vol.324
, pp. 930-935
-
-
Tahiliani, M.1
Koh, K.P.2
Shen, Y.3
Pastor, W.A.4
Bandukwala, H.5
Brudno, Y.6
Agarwal, S.7
Iyer, L.M.8
Liu, D.R.9
Aravind, L.10
Rao, A.11
-
77
-
-
66149123748
-
The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain
-
Kriaucionis, S. and Heintz, N. (2009) The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain. Science 324, 929-930
-
(2009)
Science
, vol.324
, pp. 929-930
-
-
Kriaucionis, S.1
Heintz, N.2
-
78
-
-
77956189495
-
Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification
-
Ito, S., D'Alessio, A. C., Taranova, O. V., Hong, K., Sowers, L. C. and Zhang, Y. (2010) Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification. Nature 466, 1129-1133
-
(2010)
Nature
, vol.466
, pp. 1129-1133
-
-
Ito, S.1
D'Alessio, A.C.2
Taranova, O.V.3
Hong, K.4
Sowers, L.C.5
Zhang, Y.6
-
79
-
-
84858279865
-
5-Hydroxymethylcytosine: A new kid on the epigenetic block?
-
Matarese, F., Carrillo-de Santa Pau, E. and Stunnenberg, H. G. (2011) 5-Hydroxymethylcytosine: a new kid on the epigenetic block? Mol. Syst. Biol. 7, 562
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 562
-
-
Matarese, F.1
Carrillo-De Santa Pau, E.2
Stunnenberg, H.G.3
-
80
-
-
82955207588
-
Mechanisms and functions of Tet protein-mediated 5-methylcytosine oxidation
-
Wu, H. and Zhang, Y. (2011) Mechanisms and functions of Tet protein-mediated 5-methylcytosine oxidation. Genes Dev. 25, 2436-2452
-
(2011)
Genes Dev.
, vol.25
, pp. 2436-2452
-
-
Wu, H.1
Zhang, Y.2
-
81
-
-
79959859654
-
Integrating 5-hydroxymethylcytosine into the epigenomic landscape of human embryonic stem cells
-
Szulwach, K. E., Li, X., Li, Y., Song, C. X., Han, J. W., Kim, S., Namburi, S., Hermetz, K., Kim, J. J., Rudd, M. K. et al. (2011) Integrating 5-hydroxymethylcytosine into the epigenomic landscape of human embryonic stem cells. PLoS Genet. 7, e1002154
-
(2011)
PLoS Genet
, vol.7
-
-
Szulwach, K.E.1
Li, X.2
Li, Y.3
Song, C.X.4
Han, J.W.5
Kim, S.6
Namburi, S.7
Hermetz, K.8
Kim, J.J.9
Rudd, M.K.10
-
82
-
-
84861221693
-
Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
-
Booth, M. J., Branco, M. R., Ficz, G., Oxley, D., Krueger, F., Reik, W. and Balasubramanian, S. (2012) Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution. Science 336, 934-937
-
(2012)
Science
, vol.336
, pp. 934-937
-
-
Booth, M.J.1
Branco, M.R.2
Ficz, G.3
Oxley, D.4
Krueger, F.5
Reik, W.6
Balasubramanian, S.7
-
83
-
-
79956323623
-
Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation
-
Ficz, G., Branco, M. R., Seisenberger, S., Santos, F., Krueger, F., Hore, T. A., Marques, C. J., Andrews, S. and Reik, W. (2011) Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation. Nature 473, 398-402
-
(2011)
Nature
, vol.473
, pp. 398-402
-
-
Ficz, G.1
Branco, M.R.2
Seisenberger, S.3
Santos, F.4
Krueger, F.5
Hore, T.A.6
Marques, C.J.7
Andrews, S.8
Reik, W.9
-
84
-
-
78651280460
-
Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine
-
Song, C. X., Szulwach, K. E., Fu, Y., Dai, Q., Yi, C., Li, X., Li, Y., Chen, C. H., Zhang, W., Jian, X. et al. (2011) Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine. Nat. Biotechnol. 29, 68-72
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 68-72
-
-
Song, C.X.1
Szulwach, K.E.2
Fu, Y.3
Dai, Q.4
Yi, C.5
Li, X.6
Li, Y.7
Chen, C.H.8
Zhang, W.9
Jian, X.10
-
85
-
-
84864129535
-
Distribution of 5-hydroxymethylcytosine in different human tissues
-
Li, W. and Liu, M. (2011) Distribution of 5-hydroxymethylcytosine in different human tissues. J. Nucleic Acids 2011, 870726
-
(2011)
J. Nucleic Acids
, vol.2011
, pp. 870726
-
-
Li, W.1
Liu, M.2
-
86
-
-
80052473600
-
Lineage-specific distribution of high levels of genomic 5-hydroxymethylcytosine in mammalian development
-
Ruzov, A., Tsenkina, Y., Serio, A., Dudnakova, T., Fletcher, J., Bai, Y., Chebotareva, T., Pells, S., Hannoun, Z., Sullivan, G. et al. (2011) Lineage-specific distribution of high levels of genomic 5-hydroxymethylcytosine in mammalian development. Cell Res. 21, 1332-1342
-
(2011)
Cell Res
, vol.21
, pp. 1332-1342
-
-
Ruzov, A.1
Tsenkina, Y.2
Serio, A.3
Dudnakova, T.4
Fletcher, J.5
Bai, Y.6
Chebotareva, T.7
Pells, S.8
Hannoun, Z.9
Sullivan, G.10
-
87
-
-
79954457998
-
Genome-wide analysis of 5-hydroxymethylcytosine distribution reveals its dual function in transcriptional regulation in mouse embryonic stem cells
-
Wu, H., D'Alessio, A. C., Ito, S., Wang, Z., Cui, K., Zhao, K., Sun, Y. E. and Zhang, Y. (2011) 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)
Genes Dev
, vol.25
, pp. 679-684
-
-
Wu, H.1
D'Alessio, A.C.2
Ito, S.3
Wang, Z.4
Cui, K.5
Zhao, K.6
Sun, Y.E.7
Zhang, Y.8
-
88
-
-
80052461558
-
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
-
Ito, S., Shen, L., Dai, Q., Wu, S. C., Collins, L. B., Swenberg, J. A., He, C. and Zhang, Y. (2011) Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science 333, 1300-1303
-
(2011)
Science
, vol.333
, pp. 1300-1303
-
-
Ito, S.1
Shen, L.2
Dai, Q.3
Wu, S.C.4
Collins, L.B.5
Swenberg, J.A.6
He, C.7
Zhang, Y.8
-
89
-
-
84866940776
-
The mammalian de novo DNA methyltransferases Dnmt3a and Dnmt3b are also DNA 5-hydroxymethyl cytosine dehydroxymethylases
-
Chen, C. C., Wang, K. Y. and Shen, C. K. (2012) The mammalian de novo DNA methyltransferases Dnmt3a and Dnmt3b are also DNA 5-hydroxymethyl cytosine dehydroxymethylases. J. Biol. Chem. 287, 33116-33121
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 33116-33121
-
-
Chen, C.C.1
Wang, K.Y.2
Shen, C.K.3
-
90
-
-
79959937861
-
Thymine DNA glycosylase is essential for active DNA demethylation by linked deamination-base excision repair
-
Cortellino, S., Xu, J., Sannai, M., Moore, R., Caretti, E., Cigliano, A., Le Coz, M., Devarajan, K., Wessels, A., Soprano, D. et al. (2011) Thymine DNA glycosylase is essential for active DNA demethylation by linked deamination-base excision repair. Cell 146, 67-79
-
(2011)
Cell
, vol.146
, pp. 67-79
-
-
Cortellino, S.1
Xu, J.2
Sannai, M.3
Moore, R.4
Caretti, E.5
Cigliano, A.6
Le Coz, M.7
Devarajan, K.8
Wessels, A.9
Soprano, D.10
-
91
-
-
80053348585
-
The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes
-
Gu, T. P., Guo, F., Yang, H., Wu, H. P., Xu, G. F., Liu, W., Xie, Z. G., Shi, L., He, X., Jin, S. G. et al. (2011) The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes. Nature 477, 606-610
-
(2011)
Nature
, vol.477
, pp. 606-610
-
-
Gu, T.P.1
Guo, F.2
Yang, H.3
Wu, H.P.4
Xu, G.F.5
Liu, W.6
Xie, Z.G.7
Shi, L.8
He, X.9
Jin, S.G.10
-
92
-
-
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. and Song, H. (2011) Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain. Cell 145, 423-434
-
(2011)
Cell
, vol.145
, pp. 423-434
-
-
Guo, J.U.1
Su, Y.2
Zhong, C.3
Ming, G.L.4
Song, H.5
-
93
-
-
80052495940
-
Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA
-
He, Y. F., Li, B. Z., Li, Z., Liu, P., Wang, Y., Tang, Q., Ding, J., Jia, Y., Chen, Z., Li, L. et al. (2011) Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science 333, 1303-1307
-
(2011)
Science
, vol.333
, pp. 1303-1307
-
-
He, Y.F.1
Li, B.Z.2
Li, Z.3
Liu, P.4
Wang, Y.5
Tang, Q.6
Ding, J.7
Jia, Y.8
Chen, Z.9
Li, L.10
-
94
-
-
80054097425
-
Replication-dependent loss of 5-hydroxymethylcytosine in mouse preimplantation embryos
-
Inoue, A. and Zhang, Y. (2011) Replication-dependent loss of 5-hydroxymethylcytosine in mouse preimplantation embryos. Science 334, 194
-
(2011)
Science
, vol.334
, pp. 194
-
-
Inoue, A.1
Zhang, Y.2
-
95
-
-
33847055935
-
Endogenous cytosine damage products alter the site selectivity of human DNA maintenance methyltransferase DNMT1
-
Valinluck, V. and Sowers, L. C. (2007) Endogenous cytosine damage products alter the site selectivity of human DNA maintenance methyltransferase DNMT1. Cancer Res. 67, 946-950
-
(2007)
Cancer Res
, vol.67
, pp. 946-950
-
-
Valinluck, V.1
Sowers, L.C.2
-
96
-
-
84860221291
-
Recognition and potential mechanisms for replication and erasure of cytosine hydroxymethylation
-
Hashimoto, H., Liu, Y., Upadhyay, A. K., Chang, Y., Howerton, S. B., Vertino, P. M., Zhang, X. and Cheng, X. (2012) Recognition and potential mechanisms for replication and erasure of cytosine hydroxymethylation. Nucleic Acids Res. 40, 4841-4849
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 4841-4849
-
-
Hashimoto, H.1
Liu, Y.2
Upadhyay, A.K.3
Chang, Y.4
Howerton, S.B.5
Vertino, P.M.6
Zhang, X.7
Cheng, X.8
-
97
-
-
79952713567
-
5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming
-
Wossidlo, M., Nakamura, T., Lepikhov, K., Marques, C. J., Zakhartchenko, V., Boiani, M., Arand, J., Nakano, T., Reik, W. and Walter, J. (2011) 5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming. Nat. Commun. 2, 241
-
(2011)
Nat. Commun.
, vol.2
, pp. 241
-
-
Wossidlo, M.1
Nakamura, T.2
Lepikhov, K.3
Marques, C.J.4
Zakhartchenko, V.5
Boiani, M.6
Arand, J.7
Nakano, T.8
Reik, W.9
Walter, J.10
-
98
-
-
79961139741
-
Tet1 is dispensable for maintaining pluripotency and its loss is compatible with embryonic and postnatal development
-
Dawlaty, M. M., Ganz, K., Powell, B. E., Hu, Y. C., Markoulaki, S., Cheng, A. W., Gao, Q., Kim, J., Choi, S. W., Page, D. C. and Jaenisch, R. (2011) Tet1 is dispensable for maintaining pluripotency and its loss is compatible with embryonic and postnatal development. Cell Stem Cell 9, 166-175
-
(2011)
Cell Stem Cell
, vol.9
, pp. 166-175
-
-
Dawlaty, M.M.1
Ganz, K.2
Powell, B.E.3
Hu, Y.C.4
Markoulaki, S.5
Cheng, A.W.6
Gao, Q.7
Kim, J.8
Choi, S.W.9
Page, D.C.10
Jaenisch, R.11
-
99
-
-
80052284526
-
Ten-Eleven-Translocation 2 (TET2) negatively regulates homeostasis and differentiation of hematopoietic stem cells in mice
-
Ko, M., Bandukwala, H. S., An, J., Lamperti, E. D., Thompson, E. C., Hastie, R., Tsangaratou, A., Rajewsky, K., Koralov, S. B. and Rao, A. (2011) Ten-Eleven-Translocation 2 (TET2) negatively regulates homeostasis and differentiation of hematopoietic stem cells in mice. Proc. Natl. Acad. Sci. U.S.A. 108, 14566-14571
-
(2011)
Proc. Natl. Acad. Sci. U.S.A.
, vol.108
, pp. 14566-14571
-
-
Ko, M.1
Bandukwala, H.S.2
An, J.3
Lamperti, E.D.4
Thompson, E.C.5
Hastie, R.6
Tsangaratou, A.7
Rajewsky, K.8
Koralov, S.B.9
Rao, A.10
-
100
-
-
79960062301
-
TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis
-
Quivoron, C., Couronne, L., Della Valle, V., Lopez, C. K., Plo, I., Wagner-Ballon, O., Do Cruzeiro, M., Delhommeau, F., Arnulf, B., Stern, M. H. et al. (2011) TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis. Cancer Cell 20, 25-38
-
(2011)
Cancer Cell
, vol.20
, pp. 25-38
-
-
Quivoron, C.1
Couronne, L.2
Della Valle, V.3
Lopez, C.K.4
Plo, I.5
Wagner-Ballon, O.6
Do Cruzeiro, M.7
Delhommeau, F.8
Arnulf, B.9
Stern, M.H.10
-
101
-
-
79959431845
-
Recognition of 5-hydroxymethylcytosine by the Uhrf1 SRA domain
-
Frauer, C., Hoffmann, T., Bultmann, S., Casa, V., Cardoso, M. C., Antes, I. and Leonhardt, H. (2011) Recognition of 5-hydroxymethylcytosine by the Uhrf1 SRA domain. PLoS ONE 6, e21306
-
(2011)
PLoS ONE
, vol.6
-
-
Frauer, C.1
Hoffmann, T.2
Bultmann, S.3
Casa, V.4
Cardoso, M.C.5
Antes, I.6
Leonhardt, H.7
-
102
-
-
84871563384
-
MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system
-
Mellen, M., Ayata, P., Dewell, S., Kriaucionis, S. and Heintz, N. (2012) MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system. Cell 151, 1417-1430
-
(2012)
Cell
, vol.151
, pp. 1417-1430
-
-
Mellen, M.1
Ayata, P.2
Dewell, S.3
Kriaucionis, S.4
Heintz, N.5
-
103
-
-
79954597550
-
Ydroxylation of methylated CpG dinucleotides reverses stabilisation of DNA duplexes by cytosine 5-methylation
-
Thalhammer, A., Hansen, A. S., El-Sagheer, A. H., Brown, T. and Schofield, C. J. (2011) Hydroxylation of methylated CpG dinucleotides reverses stabilisation of DNA duplexes by cytosine 5-methylation. Chem. Commun. (Cambridge, U.K.) 47, 5325-5327
-
(2011)
Chem. Commun. (Cambridge, U.K.)
, vol.47
, pp. 5325-5327
-
-
Thalhammer, A.1
Hansen, A.S.2
El-Sagheer, A.H.3
Brown, T.4
Schofield, C.J.5
-
104
-
-
77958481159
-
Nucleosome-interacting proteins regulated by DNA and histone methylation
-
Bartke, T., Vermeulen, M., Xhemalce, B., Robson, S. C., Mann, M. and Kouzarides, T. (2010) Nucleosome-interacting proteins regulated by DNA and histone methylation. Cell 143, 470-484
-
(2010)
Cell
, vol.143
, pp. 470-484
-
-
Bartke, T.1
Vermeulen, M.2
Xhemalce, B.3
Robson, S.C.4
Mann, M.5
Kouzarides, T.6
-
105
-
-
76849094693
-
Neuronal MeCP2 is expressed at near histone-octamer levels and globally alters the chromatin state
-
Skene, P. J., Illingworth, R. S., Webb, S., Kerr, A. R., James, K. D., Turner, D. J., Andrews, R. and Bird, A. P. (2010) Neuronal MeCP2 is expressed at near histone-octamer levels and globally alters the chromatin state. Mol. Cell 37, 457-468
-
(2010)
Mol. Cell
, vol.37
, pp. 457-468
-
-
Skene, P.J.1
Illingworth, R.S.2
Webb, S.3
Kerr, A.R.4
James, K.D.5
Turner, D.J.6
Andrews, R.7
Bird, A.P.8
-
106
-
-
77954842322
-
Dnmt3a-dependent nonpromoter DNA methylation facilitates transcription of neurogenic genes
-
Wu, H., Coskun, V., Tao, J., Xie, W., Ge, W., Yoshikawa, K., Li, E., Zhang, Y. and Sun, Y. E. (2010) Dnmt3a-dependent nonpromoter DNA methylation facilitates transcription of neurogenic genes. Science 329, 444-448
-
(2010)
Science
, vol.329
, pp. 444-448
-
-
Wu, H.1
Coskun, V.2
Tao, J.3
Xie, W.4
Ge, W.5
Yoshikawa, K.6
Li, E.7
Zhang, Y.8
Sun, Y.E.9
-
107
-
-
4344685735
-
Methyl-CpG binding protein MBD1 couples histone H3 methylation at lysine 9 by SETDB1 to DNA replication and chromatin assembly
-
Sarraf, S. A. and Stancheva, I. (2004) Methyl-CpG binding protein MBD1 couples histone H3 methylation at lysine 9 by SETDB1 to DNA replication and chromatin assembly. Mol. Cell 15, 595-605
-
(2004)
Mol. Cell
, vol.15
, pp. 595-605
-
-
Sarraf, S.A.1
Stancheva, I.2
-
108
-
-
0037423186
-
The methyl-CpG-binding protein MeCP2 links DNA methylation to histone methylation
-
Fuks, F., Hurd, P. J., Wolf, D., Nan, X., Bird, A. P. and Kouzarides, T. (2003) The methyl-CpG-binding protein MeCP2 links DNA methylation to histone methylation. J. Biol. Chem. 278, 4035-4040
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 4035-4040
-
-
Fuks, F.1
Hurd, P.J.2
Wolf, D.3
Nan, X.4
Bird, A.P.5
Kouzarides, T.6
-
109
-
-
55549141877
-
Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks
-
Zilberman, D., Coleman-Derr, D., Ballinger, T. and Henikoff, S. (2008) Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks. Nature 456, 125-129
-
(2008)
Nature
, vol.456
, pp. 125-129
-
-
Zilberman, D.1
Coleman-Derr, D.2
Ballinger, T.3
Henikoff, S.4
-
110
-
-
78649281582
-
Changes in H2A.Z occupancy and DNA methylation during B-cell lymphomagenesis
-
Conerly, M. L., Teves, S. S., Diolaiti, D., Ulrich, M., Eisenman, R. N. and Henikoff, S. (2010) Changes in H2A.Z occupancy and DNA methylation during B-cell lymphomagenesis. Genome Res. 20, 1383-1390
-
(2010)
Genome Res
, vol.20
, pp. 1383-1390
-
-
Conerly, M.L.1
Teves, S.S.2
Diolaiti, D.3
Ulrich, M.4
Eisenman, R.N.5
Henikoff, S.6
-
111
-
-
84867163018
-
Spreading of X chromosome inactivation via a hierarchy of defined Polycomb stations
-
Pinter, S. F., Sadreyev, R. I., Yildirim, E., Jeon, Y., Ohsumi, T. K., Borowsky, M. and Lee, J. T. (2012) Spreading of X chromosome inactivation via a hierarchy of defined Polycomb stations. Genome Res. 22, 1864-1876
-
(2012)
Genome Res
, vol.22
, pp. 1864-1876
-
-
Pinter, S.F.1
Sadreyev, R.I.2
Yildirim, E.3
Jeon, Y.4
Ohsumi, T.K.5
Borowsky, M.6
Lee, J.T.7
-
112
-
-
84865292901
-
Dense chromatin activates Polycomb repressive complex 2 to regulate H3 lysine 27 methylation
-
Yuan, W., Wu, T., Fu, H., Dai, C., Wu, H., Liu, N., Li, X., Xu, M., Zhang, Z., Niu, T. et al. (2012) Dense chromatin activates Polycomb repressive complex 2 to regulate H3 lysine 27 methylation. Science 337, 971-975
-
(2012)
Science
, vol.337
, pp. 971-975
-
-
Yuan, W.1
Wu, T.2
Fu, H.3
Dai, C.4
Wu, H.5
Liu, N.6
Li, X.7
Xu, M.8
Zhang, Z.9
Niu, T.10
-
113
-
-
26244456163
-
Polycomb group protein complexes exchange rapidly in living Drosophila
-
Ficz, G., Heintzmann, R. and Arndt-Jovin, D. J. (2005) Polycomb group protein complexes exchange rapidly in living Drosophila . Development 132, 3963-3976
-
(2005)
Development
, vol.132
, pp. 3963-3976
-
-
Ficz, G.1
Heintzmann, R.2
Arndt-Jovin, D.J.3
-
114
-
-
33644770293
-
RNAi components are required for nuclear clustering of Polycomb group response elements
-
Grimaud, C., Bantignies, F., Pal-Bhadra, M., Ghana, P., Bhadra, U. and Cavalli, G. (2006) RNAi components are required for nuclear clustering of Polycomb group response elements. Cell 124, 957-971
-
(2006)
Cell
, vol.124
, pp. 957-971
-
-
Grimaud, C.1
Bantignies, F.2
Pal-Bhadra, M.3
Ghana, P.4
Bhadra, U.5
Cavalli, G.6
-
115
-
-
79953750893
-
Interactions among Polycomb domains are guided by chromosome architecture
-
Tolhuis, B., Blom, M., Kerkhoven, R. M., Pagie, L., Teunissen, H., Nieuwland, M., Simonis, M., de Laat, W., van Lohuizen, M. and van Steensel, B. (2011) Interactions among Polycomb domains are guided by chromosome architecture. PLoS Genet. 7, e1001343
-
(2011)
PLoS Genet
, vol.7
-
-
Tolhuis, B.1
Blom, M.2
Kerkhoven, R.M.3
Pagie, L.4
Teunissen, H.5
Nieuwland, M.6
Simonis, M.7
De Laat, W.8
Van Lohuizen, M.9
Van Steensel, B.10
-
116
-
-
84860366510
-
A view of nuclear Polycomb bodies
-
Pirrotta, V. and Li, H. B. (2012) A view of nuclear Polycomb bodies. Curr. Opin. Genet. Dev. 22, 101-109
-
(2012)
Curr. Opin. Genet. Dev.
, vol.22
, pp. 101-109
-
-
Pirrotta, V.1
Li, H.B.2
-
117
-
-
84865681429
-
TrxG and PcG proteins but not methylated histones remain associated with DNA through replication
-
Petruk, S., Sedkov, Y., Johnston, D. M., Hodgson, J. W., Black, K. L., Kovermann, S. K., Beck, S., Canaani, E., Brock, H. W. and Mazo, A. (2012) TrxG and PcG proteins but not methylated histones remain associated with DNA through replication. Cell 150, 922-933
-
(2012)
Cell
, vol.150
, pp. 922-933
-
-
Petruk, S.1
Sedkov, Y.2
Johnston, D.M.3
Hodgson, J.W.4
Black, K.L.5
Kovermann, S.K.6
Beck, S.7
Canaani, E.8
Brock, H.W.9
Mazo, A.10
-
118
-
-
79958152841
-
Histone H4K20me3 and HP1α are late heterochromatin markers in development, but present in undifferentiated embryonic stem cells
-
Wongtawan, T., Taylor, J. E., Lawson, K. A., Wilmut, I. and Pennings, S. (2011) Histone H4K20me3 and HP1α are late heterochromatin markers in development, but present in undifferentiated embryonic stem cells. J. Cell Sci. 124, 1878-1890
-
(2011)
J. Cell Sci.
, vol.124
, pp. 1878-1890
-
-
Wongtawan, T.1
Taylor, J.E.2
Lawson, K.A.3
Wilmut, I.4
Pennings, S.5
-
119
-
-
76249090741
-
Nucleosome deposition and DNA methylation at coding region boundaries
-
Choi, J. K., Bae, J. B., Lyu, J., Kim, T. Y. and Kim, Y. J. (2009) Nucleosome deposition and DNA methylation at coding region boundaries. Genome Biol. 10, R89
-
(2009)
Genome Biol.
, vol.10
-
-
Choi, J.K.1
Bae, J.B.2
Lyu, J.3
Kim, T.Y.4
Kim, Y.J.5
-
120
-
-
16344367080
-
DNA methylation, nucleosome formation and positioning
-
Pennings, S., Allan, J. and Davey, C. S. (2005) DNA methylation, nucleosome formation and positioning. Briefings Funct. Genomics Proteomics 3, 351-361
-
(2005)
Briefings Funct. Genomics Proteomics
, vol.3
, pp. 351-361
-
-
Pennings, S.1
Allan, J.2
Davey, C.S.3
-
121
-
-
79959843359
-
Polycomb proteins in mammalian cell differentiation and plasticity
-
Prezioso, C. and Orlando, V. (2011) Polycomb proteins in mammalian cell differentiation and plasticity. FEBS Lett. 585, 2067-2077
-
(2011)
FEBS Lett
, vol.585
, pp. 2067-2077
-
-
Prezioso, C.1
Orlando, V.2
-
122
-
-
0036144048
-
DNA methylation patterns and epigenetic memory
-
Bird, A. (2002) DNA methylation patterns and epigenetic memory. Genes Dev. 16, 6-21
-
(2002)
Genes Dev.
, vol.16
, pp. 6-21
-
-
Bird, A.1
-
123
-
-
70350149728
-
Recruitment of polycomb group complexes and their role in the dynamic regulation of cell fate choice
-
Schuettengruber, B. and Cavalli, G. (2009) Recruitment of polycomb group complexes and their role in the dynamic regulation of cell fate choice. Development 136, 3531-3542
-
(2009)
Development
, vol.136
, pp. 3531-3542
-
-
Schuettengruber, B.1
Cavalli, G.2
-
124
-
-
78751662908
-
The Polycomb complex PRC2 and its mark in life
-
Margueron, R. and Reinberg, D. (2011) The Polycomb complex PRC2 and its mark in life. Nature 469, 343-349
-
(2011)
Nature
, vol.469
, pp. 343-349
-
-
Margueron, R.1
Reinberg, D.2
-
125
-
-
33646870495
-
Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions
-
Bracken, A. P., Dietrich, N., Pasini, D., Hansen, K. H. and Helin, K. (2006) Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions. Genes Dev. 20, 1123-1136
-
(2006)
Genes Dev
, vol.20
, pp. 1123-1136
-
-
Bracken, A.P.1
Dietrich, N.2
Pasini, D.3
Hansen, K.H.4
Helin, K.5
-
126
-
-
33646865180
-
Control of developmental regulators by Polycomb in human embryonic stem cells
-
Lee, T. I., Jenner, R. G., Boyer, L. A., Guenther, M. G., Levine, S. S., Kumar, R. M., Chevalier, B., Johnstone, S. E., Cole, M. F., Isono, K. et al. (2006) Control of developmental regulators by Polycomb in human embryonic stem cells. Cell 125, 301-313
-
(2006)
Cell
, vol.125
, pp. 301-313
-
-
Lee, T.I.1
Jenner, R.G.2
Boyer, L.A.3
Guenther, M.G.4
Levine, S.S.5
Kumar, R.M.6
Chevalier, B.7
Johnstone, S.E.8
Cole, M.F.9
Isono, K.10
-
127
-
-
33646882068
-
Polycomb complexes repress developmental regulators in murine embryonic stem cells
-
Boyer, L. A., Plath, K., Zeitlinger, J., Brambrink, T., Medeiros, L. A., Lee, T. I., Levine, S. S., Wernig, M., Tajonar, A., Ray, M. K. et al. (2006) Polycomb complexes repress developmental regulators in murine embryonic stem cells. Nature 441, 349-353
-
(2006)
Nature
, vol.441
, pp. 349-353
-
-
Boyer, L.A.1
Plath, K.2
Zeitlinger, J.3
Brambrink, T.4
Medeiros, L.A.5
Lee, T.I.6
Levine, S.S.7
Wernig, M.8
Tajonar, A.9
Ray, M.K.10
-
128
-
-
32844459336
-
The Polycomb group protein EZH2 directly controls DNA methylation
-
Vire, E., Brenner, C., Deplus, R., Blanchon, L., Fraga, M., Didelot, C., Morey, L., Van Eynde, A., Bernard, D., Vanderwinden, J. M. et al. (2006) The Polycomb group protein EZH2 directly controls DNA methylation. Nature 439, 871-874
-
(2006)
Nature
, vol.439
, pp. 871-874
-
-
Vire, E.1
Brenner, C.2
Deplus, R.3
Blanchon, L.4
Fraga, M.5
Didelot, C.6
Morey, L.7
Van Eynde, A.8
Bernard, D.9
Vanderwinden, J.M.10
-
129
-
-
33846649587
-
Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer
-
Schlesinger, Y., Straussman, R., Keshet, I., Farkash, S., Hecht, M., Zimmerman, J., Eden, E., Yakhini, Z., Ben-Shushan, E., Reubinoff, B. E. et al. (2007) Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer. Nat. Genet. 39, 232-236
-
(2007)
Nat. Genet.
, vol.39
, pp. 232-236
-
-
Schlesinger, Y.1
Straussman, R.2
Keshet, I.3
Farkash, S.4
Hecht, M.5
Zimmerman, J.6
Eden, E.7
Yakhini, Z.8
Ben-Shushan, E.9
Reubinoff, B.E.10
-
130
-
-
79959990071
-
Regulation of mammalian DNA methyltransferases: A route to new mechanisms
-
Denis, H., Ndlovu, M. N. and Fuks, F. (2011) Regulation of mammalian DNA methyltransferases: a route to new mechanisms. EMBO Rep. 12, 647-656
-
(2011)
EMBO Rep
, vol.12
, pp. 647-656
-
-
Denis, H.1
Ndlovu, M.N.2
Fuks, F.3
-
131
-
-
69449086947
-
A vertebrate Polycomb response element governs segmentation of the posterior hindbrain
-
Sing, A., Pannell, D., Karaiskakis, A., Sturgeon, K., Djabali, M., Ellis, J., Lipshitz, H. D. and Cordes, S. P. (2009) A vertebrate Polycomb response element governs segmentation of the posterior hindbrain. Cell 138, 885-897
-
(2009)
Cell
, vol.138
, pp. 885-897
-
-
Sing, A.1
Pannell, D.2
Karaiskakis, A.3
Sturgeon, K.4
Djabali, M.5
Ellis, J.6
Lipshitz, H.D.7
Cordes, S.P.8
-
132
-
-
73149111929
-
A region of the human HOXD cluster that confers polycomb-group responsiveness
-
Woo, C. J., Kharchenko, P. V., Daheron, L., Park, P. J. and Kingston, R. E. (2010) A region of the human HOXD cluster that confers polycomb-group responsiveness. Cell 140, 99-110
-
(2010)
Cell
, vol.140
, pp. 99-110
-
-
Woo, C.J.1
Kharchenko, P.V.2
Daheron, L.3
Park, P.J.4
Kingston, R.E.5
-
133
-
-
84870825642
-
Polycomb PHF19 binds H3K36me3 and recruits PRC2 and demethylase NO66 to embryonic stem cell genes during differentiation
-
Brien, G. L., Gambero, G., O'Connell, D. J., Jerman, E., Turner, S. A., Egan, C. M., Dunne, E. J., Jurgens, M. C., Wynne, K., Piao, L. et al. (2012) Polycomb PHF19 binds H3K36me3 and recruits PRC2 and demethylase NO66 to embryonic stem cell genes during differentiation. Nat. Struct. Mol. Biol. 19, 1273-1281
-
(2012)
Nat. Struct. Mol. Biol.
, vol.19
, pp. 1273-1281
-
-
Brien, G.L.1
Gambero, G.2
O'Connell, D.J.3
Jerman, E.4
Turner, S.A.5
Egan, C.M.6
Dunne, E.J.7
Jurgens, M.C.8
Wynne, K.9
Piao, L.10
-
134
-
-
55449105221
-
Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains
-
Ku, M., Koche, R. P., Rheinbay, E., Mendenhall, E. M., Endoh, M., Mikkelsen, T. S., Presser, A., Nusbaum, C., Xie, X., Chi, A. S. et al. (2008) Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains. PLoS Genet. 4, e1000242
-
(2008)
PLoS Genet
, vol.4
-
-
Ku, M.1
Koche, R.P.2
Rheinbay, E.3
Mendenhall, E.M.4
Endoh, M.5
Mikkelsen, T.S.6
Presser, A.7
Nusbaum, C.8
Xie, X.9
Chi, A.S.10
-
135
-
-
78650684739
-
GC-rich sequence elements recruit PRC2 in mammalian ES cells
-
Mendenhall, E. M., Koche, R. P., Truong, T., Zhou, V. W., Issac, B., Chi, A. S., Ku, M. and Bernstein, B. E. (2010) GC-rich sequence elements recruit PRC2 in mammalian ES cells. PLoS Genet. 6, e1001244
-
(2010)
PLoS Genet
, vol.6
-
-
Mendenhall, E.M.1
Koche, R.P.2
Truong, T.3
Zhou, V.W.4
Issac, B.5
Chi, A.S.6
Ku, M.7
Bernstein, B.E.8
-
136
-
-
84857190178
-
An interspecies analysis reveals a key role for unmethylated CpG dinucleotides in vertebrate Polycomb complex recruitment
-
Lynch, M. D., Smith, A. J., De Gobbi, M., Flenley, M., Hughes, J. R., Vernimmen, D., Ayyub, H., Sharpe, J. A., Sloane-Stanley, J. A., Sutherland, L. et al. (2012) An interspecies analysis reveals a key role for unmethylated CpG dinucleotides in vertebrate Polycomb complex recruitment. EMBO J. 31, 317-329
-
(2012)
EMBO J
, vol.31
, pp. 317-329
-
-
Lynch, M.D.1
Smith, A.J.2
De Gobbi, M.3
Flenley, M.4
Hughes, J.R.5
Vernimmen, D.6
Ayyub, H.7
Sharpe, J.A.8
Sloane-Stanley, J.A.9
Sutherland, L.10
-
137
-
-
50849107031
-
Antagonism between DNA and H3K27 methylation at the imprinted Rasgrf1 locus
-
Lindroth, A. M., Park, Y. J., McLean, C. M., Dokshin, G. A., Persson, J. M., Herman, H., Pasini, D., Miro, X., Donohoe, M. E., Lee, J. T. et al. (2008) Antagonism between DNA and H3K27 methylation at the imprinted Rasgrf1 locus. PLoS Genet. 4, e1000145
-
(2008)
PLoS Genet.
, vol.4
-
-
Lindroth, A.M.1
Park, Y.J.2
McLean, C.M.3
Dokshin, G.A.4
Persson, J.M.5
Herman, H.6
Pasini, D.7
Miro, X.8
Donohoe, M.E.9
Lee, J.T.10
-
138
-
-
84861883921
-
Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk
-
Brinkman, A. B., Gu, H., Bartels, S. J., Zhang, Y., Matarese, F., Simmer, F., Marks, H., Bock, C., Gnirke, A., Meissner, A. and Stunnenberg, H. G. (2012) Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk. Genome Res. 22, 1128-1138
-
(2012)
Genome Res
, vol.22
, pp. 1128-1138
-
-
Brinkman, A.B.1
Gu, H.2
Bartels, S.J.3
Zhang, Y.4
Matarese, F.5
Simmer, F.6
Marks, H.7
Bock, C.8
Gnirke, A.9
Meissner, A.10
Stunnenberg, H.G.11
-
139
-
-
51349105905
-
Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line
-
Gal-Yam, E. N., Egger, G., Iniguez, L., Holster, H., Einarsson, S., Zhang, X., Lin, J. C., Liang, G., Jones, P. A. and Tanay, A. (2008) Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line. Proc. Natl. Acad. Sci. U.S.A. 105, 12979-12984
-
(2008)
Proc. Natl. Acad. Sci. U.S.A.
, vol.105
, pp. 12979-12984
-
-
Gal-Yam, E.N.1
Egger, G.2
Iniguez, L.3
Holster, H.4
Einarsson, S.5
Zhang, X.6
Lin, J.C.7
Liang, G.8
Jones, P.A.9
Tanay, A.10
-
140
-
-
84861916932
-
Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA
-
Statham, A. L., Robinson, M. D., Song, J. Z., Coolen, M. W., Stirzaker, C. and Clark, S. J. (2012) Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA. Genome Res. 22, 1120-1127
-
(2012)
Genome Res
, vol.22
, pp. 1120-1127
-
-
Statham, A.L.1
Robinson, M.D.2
Song, J.Z.3
Coolen, M.W.4
Stirzaker, C.5
Clark, S.J.6
-
141
-
-
78449265382
-
H3K27me3 profiling of the endosperm implies exclusion of polycomb group protein targeting by DNA methylation
-
Weinhofer, I., Hehenberger, E., Roszak, P., Hennig, L. and Kohler, C. (2010) H3K27me3 profiling of the endosperm implies exclusion of polycomb group protein targeting by DNA methylation. PLoS Genet. 6, e1001152
-
(2010)
PLoS Genet
, vol.6
-
-
Weinhofer, I.1
Hehenberger, E.2
Roszak, P.3
Hennig, L.4
Kohler, C.5
-
142
-
-
79956292024
-
Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells
-
Wu, H., D'Alessio, A. C., Ito, S., Xia, K., Wang, Z., Cui, K., Zhao, K., Sun, Y. E. and Zhang, Y. (2011) Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells. Nature 473, 389-393
-
(2011)
Nature
, vol.473
, pp. 389-393
-
-
Wu, H.1
D'Alessio, A.C.2
Ito, S.3
Xia, K.4
Wang, Z.5
Cui, K.6
Zhao, K.7
Sun, Y.E.8
Zhang, Y.9
|