메뉴 건너뛰기




Volumn 44, Issue 18, 2016, Pages 8682-8692

A primary role of TET proteins in establishment and maintenance of De Novo bivalency at CpG islands

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBONUCLEOPROTEIN; DNA METHYLTRANSFERASE 3A; DNA METHYLTRANSFERASE 3B; METHYL CPG BINDING PROTEIN 2; TEN ELEVEN TRANSLOCATION PROTEIN; UNCLASSIFIED DRUG; DNA BINDING PROTEIN; HISTONE; LYSINE; ONCOPROTEIN; TET1 PROTEIN, MOUSE; TET2 PROTEIN, HUMAN; TET2 PROTEIN, MOUSE;

EID: 84992322851     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkw529     Document Type: Article
Times cited : (50)

References (55)
  • 2
    • 43749098985 scopus 로고    scopus 로고
    • DNA methylation landscapes: Provocative insights from epigenomics
    • Suzuki M.M, and Bird A. (2008). DNA methylation landscapes: provocative insights from epigenomics. Nat. Rev. Genet, 9, 465-476.
    • (2008) Nat. Rev. Genet , vol.9 , pp. 465-476
    • Suzuki, M.M.1    Bird, A.2
  • 3
    • 80755156279 scopus 로고    scopus 로고
    • Guiding DNA methylation
    • Meissner A. (2011). Guiding DNA methylation. Cell Stem Cell, 9, 388-390.
    • (2011) Cell Stem Cell , vol.9 , pp. 388-390
    • Meissner, A.1
  • 4
    • 77957970498 scopus 로고    scopus 로고
    • Epigenetic modifications in pluripotent and differentiated cells
    • Meissner A. (2010) Epigenetic modifications in pluripotent and differentiated cells. Nat. Biotechnol, 28, 1079-1088.
    • (2010) Nat. Biotechnol , vol.28 , pp. 1079-1088
    • Meissner, A.1
  • 5
    • 68349135058 scopus 로고    scopus 로고
    • Histone modification patterns and epigenetic codes
    • Lennartsson A, and Ekwall K. (2009). Histone modification patterns and epigenetic codes. Biochim et Biophys. Acta, 1790, 863-868.
    • (2009) Biochim et Biophys. Acta , vol.1790 , pp. 863-868
    • Lennartsson, A.1    Ekwall, K.2
  • 6
    • 67349190247 scopus 로고    scopus 로고
    • Linking DNA methylation and histone modification: Patterns and paradigms
    • Cedar H, and Bergman Y. (2009). Linking DNA methylation and histone modification: patterns and paradigms. Nat. Rev. Genet, 10, 295-304.
    • (2009) Nat. Rev. Genet , vol.10 , pp. 295-304
    • Cedar, H.1    Bergman, Y.2
  • 9
    • 34447098370 scopus 로고    scopus 로고
    • A chromatin landmark and transcription initiation at most promoters in human cells
    • Guenther M.G, Levine S.S, Boyer L.A, Jaenisch R, and Young R.A. (2007). A chromatin landmark and transcription initiation at most promoters in human cells. Cell, 130, 77-88.
    • (2007) Cell , vol.130 , pp. 77-88
    • Guenther, M.G.1    Levine, S.S.2    Boyer, L.A.3    Jaenisch, R.4    Young, R.A.5
  • 11
    • 33646870495 scopus 로고    scopus 로고
    • 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
  • 13
    • 58049191558 scopus 로고    scopus 로고
    • Chromatin signatures in multipotent human hematopoietic stem cells indicate the fate of bivalent genes during differentiation
    • Cui K, Zang C, Roh T.Y, Schones D.E, Childs R.W, Peng W, and Zhao K. (2009). Chromatin signatures in multipotent human hematopoietic stem cells indicate the fate of bivalent genes during differentiation. Cell Stem Cell, 4, 80-93.
    • (2009) Cell Stem Cell , vol.4 , pp. 80-93
    • Cui, K.1    Zang, C.2    Roh, T.Y.3    Schones, D.E.4    Childs, R.W.5    Peng, W.6    Zhao, K.7
  • 22
    • 84879260661 scopus 로고    scopus 로고
    • A double take on bivalent promoters
    • Voigt P, Tee W.W, and Reinberg D. (2013). A double take on bivalent promoters. Genes Dev, 27, 1318-1338.
    • (2013) Genes Dev , vol.27 , pp. 1318-1338
    • Voigt, P.1    Tee, W.W.2    Reinberg, D.3
  • 24
    • 73149111929 scopus 로고    scopus 로고
    • 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
  • 26
    • 66749152204 scopus 로고    scopus 로고
    • Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids
    • Iyer L.M, Tahiliani M, Rao A, and Aravind L. (2009). Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids. Cell Cycle, 8, 1698-1710.
    • (2009) Cell Cycle , vol.8 , pp. 1698-1710
    • Iyer, L.M.1    Tahiliani, M.2    Rao, A.3    Aravind, L.4
  • 27
    • 80052495940 scopus 로고    scopus 로고
    • 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
  • 28
    • 80052461558 scopus 로고    scopus 로고
    • 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
  • 29
    • 84860749868 scopus 로고    scopus 로고
    • Tet family proteins and 5-hydroxymethylcytosine in development and disease
    • Tan L, and Shi Y.G. (2012). Tet family proteins and 5-hydroxymethylcytosine in development and disease. Development, 139, 1895-1902.
    • (2012) Development , vol.139 , pp. 1895-1902
    • Tan, L.1    Shi, Y.G.2
  • 30
    • 65449154892 scopus 로고    scopus 로고
    • Generation of transgene-free induced pluripotent mouse stem cells by the piggyBac transposon
    • Yusa K, Rad R, Takeda J, and Bradley A. (2009). Generation of transgene-free induced pluripotent mouse stem cells by the piggyBac transposon. Nat. Methods, 6, 363-369.
    • (2009) Nat. Methods , vol.6 , pp. 363-369
    • Yusa, K.1    Rad, R.2    Takeda, J.3    Bradley, A.4
  • 32
    • 78649825211 scopus 로고    scopus 로고
    • TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine
    • Zhang H, Zhang X, Clark E, Mulcahey M, Huang S, and Shi Y.G. (2010). TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine. Cell Res, 20, 1390-1393.
    • (2010) Cell Res , vol.20 , pp. 1390-1393
    • Zhang, H.1    Zhang, X.2    Clark, E.3    Mulcahey, M.4    Huang, S.5    Shi, Y.G.6
  • 33
    • 84876580885 scopus 로고    scopus 로고
    • Genome-wide comparison of DNA hydroxymethylation in mouse embryonic stem cells and neural progenitor cells by a new comparative hMeDIP-seq method
    • Tan L, Xiong L, Xu W, Wu F, Huang N, Xu Y, Kong L, Zheng L, Schwartz L, Shi Y, et al. (2013). Genome-wide comparison of DNA hydroxymethylation in mouse embryonic stem cells and neural progenitor cells by a new comparative hMeDIP-seq method. Nucleic Acids Res, 41, e84.
    • (2013) Nucleic Acids Res , vol.41 , pp. e84
    • Tan, L.1    Xiong, L.2    Xu, W.3    Wu, F.4    Huang, N.5    Xu, Y.6    Kong, L.7    Zheng, L.8    Schwartz, L.9    Shi, Y.10
  • 34
    • 79955948324 scopus 로고    scopus 로고
    • Genome-wide regulation of 5hmC 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells
    • Xu Y, Wu F, Tan L, Kong L, Xiong L, Deng J, Barbera A.J, Zheng L, Zhang H, Huang S, et al. (2011). Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells. Mol. Cell, 42, 451-464.
    • (2011) Mol. Cell , vol.42 , pp. 451-464
    • Xu, Y.1    Wu, F.2    Tan, L.3    Kong, L.4    Xiong, L.5    Deng, J.6    Barbera, A.J.7    Zheng, L.8    Zhang, H.9    Huang, S.10
  • 35
    • 58549112996 scopus 로고    scopus 로고
    • Bioinformatics enrichment tools: Paths toward the comprehensive functional analysis of large gene lists
    • Huang da W, Sherman B.T, and Lempicki R.A. (2009). Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res, 37, 1-13.
    • (2009) Nucleic Acids Res , vol.37 , pp. 1-13
    • Huang Da, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 36
    • 78650058320 scopus 로고    scopus 로고
    • Evaluation of affinity-based genome-wide DNA methylation data: Effects of CpG density, amplification bias, and copy number variation
    • Robinson M.D, Stirzaker C, Statham A.L, Coolen M.W, Song J.Z, Nair S.S, Strbenac D, Speed T.P, and Clark S.J. (2010). Evaluation of affinity-based genome-wide DNA methylation data: effects of CpG density, amplification bias, and copy number variation. Genome Res, 20, 1719-1729.
    • (2010) Genome Res , vol.20 , pp. 1719-1729
    • Robinson, M.D.1    Stirzaker, C.2    Statham, A.L.3    Coolen, M.W.4    Song, J.Z.5    Nair, S.S.6    Strbenac, D.7    Speed, T.P.8    Clark, S.J.9
  • 38
    • 0034458963 scopus 로고    scopus 로고
    • Genomic targeting of methylated DNA: Influence of methylation on transcription, replication, chromatin structure, and histone acetylation
    • Schubeler D, Lorincz M.C, Cimbora D.M, Telling A, Feng Y.Q, Bouhassira E.E, and Groudine M. (2000). Genomic targeting of methylated DNA: influence of methylation on transcription, replication, chromatin structure, and histone acetylation. Mol. Cell. Biol, 20, 9103-9112.
    • (2000) Mol. Cell. Biol , vol.20 , pp. 9103-9112
    • Schubeler, D.1    Lorincz, M.C.2    Cimbora, D.M.3    Telling, A.4    Feng, Y.Q.5    Bouhassira, E.E.6    Groudine, M.7
  • 39
  • 41
    • 84865292901 scopus 로고    scopus 로고
    • 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
  • 42
    • 80052555414 scopus 로고    scopus 로고
    • Dynamics of bivalent chromatin domains upon drug induced reactivation and resilencing in cancer cells
    • Mayor R, Munoz M, Coolen M.W, Custodio J, Esteller M, Clark S.J, and Peinado M.A. (2011). Dynamics of bivalent chromatin domains upon drug induced reactivation and resilencing in cancer cells. Epigenetics, 6, 1138-1148.
    • (2011) Epigenetics , vol.6 , pp. 1138-1148
    • Mayor, R.1    Munoz, M.2    Coolen, M.W.3    Custodio, J.4    Esteller, M.5    Clark, S.J.6    Peinado, M.A.7
  • 44
    • 38649126918 scopus 로고    scopus 로고
    • 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
  • 45
    • 84555189745 scopus 로고    scopus 로고
    • DNA methylation: TET proteins-guardians of CpG islands?
    • Williams K, Christensen J, and Helin K. (2012). DNA methylation: TET proteins-guardians of CpG islands? EMBO Rep, 13, 28-35.
    • (2012) EMBO Rep , vol.13 , pp. 28-35
    • Williams, K.1    Christensen, J.2    Helin, K.3
  • 46
    • 84954540490 scopus 로고    scopus 로고
    • Altering TET dioxygenase levels within physiological range affects DNA methylation dynamics of HEK293 cells
    • Grosser C, Wagner N, Grothaus K, and Horsthemke B. (2015). Altering TET dioxygenase levels within physiological range affects DNA methylation dynamics of HEK293 cells. Epigenetics, 10, 819-833.
    • (2015) Epigenetics , vol.10 , pp. 819-833
    • Grosser, C.1    Wagner, N.2    Grothaus, K.3    Horsthemke, B.4
  • 47
    • 84903182472 scopus 로고    scopus 로고
    • TET1 is a maintenance DNA demethylase that prevents methylation spreading in differentiated cells
    • Jin C, Lu Y, Jelinek J, Liang S, Estecio M.R, Barton M.C, and Issa J.P. (2014). TET1 is a maintenance DNA demethylase that prevents methylation spreading in differentiated cells. Nucleic Acids Res, 42, 6956-6971.
    • (2014) Nucleic Acids Res , vol.42 , pp. 6956-6971
    • Jin, C.1    Lu, Y.2    Jelinek, J.3    Liang, S.4    Estecio, M.R.5    Barton, M.C.6    Issa, J.P.7
  • 49
    • 84897989106 scopus 로고    scopus 로고
    • Tet and TDG mediate DNA demethylation essential for mesenchymal-To-epithelial transition in somatic cell reprogramming
    • Hu X, Zhang L, Mao S.Q, Li Z, Chen J, Zhang R.R, Wu H.P, Gao J, Guo F, Liu W, et al. (2014). Tet and TDG mediate DNA demethylation essential for mesenchymal-To-epithelial transition in somatic cell reprogramming. Cell Stem Cell, 14, 512-522.
    • (2014) Cell Stem Cell , vol.14 , pp. 512-522
    • Hu, X.1    Zhang, L.2    Mao, S.Q.3    Li, Z.4    Chen, J.5    Zhang, R.R.6    Wu, H.P.7    Gao, J.8    Guo, F.9    Liu, W.10
  • 51
    • 0037068353 scopus 로고    scopus 로고
    • DNA methylation in cancer: Too much, but also too little
    • Ehrlich M. (2002). DNA methylation in cancer: too much, but also too little. Oncogene, 21, 5400-5413.
    • (2002) Oncogene , vol.21 , pp. 5400-5413
    • Ehrlich, M.1
  • 53
    • 84873411803 scopus 로고    scopus 로고
    • Tumor development is associated with decrease of TET gene expression and 5-methylcytosine hydroxylation
    • Yang H, Liu Y, Bai F, Zhang J.Y, Ma S.H, Liu J, Xu Z.D, Zhu H.G, Ling Z.Q, Ye D, et al. (2013). Tumor development is associated with decrease of TET gene expression and 5-methylcytosine hydroxylation. Oncogene, 32, 663-669.
    • (2013) Oncogene , vol.32 , pp. 663-669
    • Yang, H.1    Liu, Y.2    Bai, F.3    Zhang, J.Y.4    Ma, S.H.5    Liu, J.6    Xu, Z.D.7    Zhu, H.G.8    Ling, Z.Q.9    Ye, D.10
  • 54
    • 84864129535 scopus 로고    scopus 로고
    • 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, 870726.
    • (2011) J. Nucleic Acids , pp. 870726
    • Li, W.1    Liu, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.