메뉴 건너뛰기




Volumn 27, Issue 1, 2015, Pages 84-97

A Comprehensive View of the Epigenetic Landscape Part I: DNA Methylation, Passive and Active DNA Demethylation Pathways and Histone Variants

Author keywords

Cytosine variants; DNA methylation; DNA methyltransferases; Histone variants; Passive and active demethylation; TET family enzymes

Indexed keywords

3 METHYLCYTOSINE; 5 CARBOXYLCYTOSINE; 5 FORMYLCYTOSINE; 5 HYDROXYMETHYLCYTOSINE; 5 METHYLCYTOSINE; CYTOSINE; CYTOSINE DERIVATIVE; DNA; DNA METHYLTRANSFERASE; HISTONE H1; HISTONE H2A; HISTONE H2B; HISTONE H3; HISTONE H4; UNCLASSIFIED DRUG; HISTONE;

EID: 84922004823     PISSN: 10298428     EISSN: 14763524     Source Type: Journal    
DOI: 10.1007/s12640-014-9497-5     Document Type: Review
Times cited : (70)

References (108)
  • 1
    • 84878496477 scopus 로고    scopus 로고
    • From paramutation to paradigm
    • COI: 1:CAS:528:DC%2BC3sXpsFelu74%3D, PID: 23717216
    • Adams IR, Meehan RR (2013) From paramutation to paradigm. PLOS Genet 9(5):e1003537
    • (2013) PLOS Genet , vol.9 , Issue.5 , pp. e1003537
    • Adams, I.R.1    Meehan, R.R.2
  • 2
    • 77954324619 scopus 로고    scopus 로고
    • Epigenetics and environment: a complex relationship
    • COI: 1:CAS:528:DC%2BC3cXhtVSksLbE, PID: 20378707
    • Aguilera O, Fernández AF, Muñoz A, Fraga MF (2010) Epigenetics and environment: a complex relationship. J Appl Physiol 109:243–251
    • (2010) J Appl Physiol , vol.109 , pp. 243-251
    • Aguilera, O.1    Fernández, A.F.2    Muñoz, A.3    Fraga, M.F.4
  • 3
    • 84872455562 scopus 로고    scopus 로고
    • 5-carboxylcytosine is localized to euchromatic regions in the nuclei of follicular cells in axolotl ovary
    • PID: 23138778
    • Alioui A, Wheldon LM, Abakir A, Ferjentsik Z, Johnson AD, Ruzov A (2012) 5-carboxylcytosine is localized to euchromatic regions in the nuclei of follicular cells in axolotl ovary. Nucleus 3(6):565–569
    • (2012) Nucleus , vol.3 , Issue.6 , pp. 565-569
    • Alioui, A.1    Wheldon, L.M.2    Abakir, A.3    Ferjentsik, Z.4    Johnson, A.D.5    Ruzov, A.6
  • 4
    • 33947524604 scopus 로고    scopus 로고
    • Histone variants—the structure behind the function
    • COI: 1:CAS:528:DC%2BD28XhtlWmsLrN
    • Ausio J (2006) Histone variants—the structure behind the function. Brief Funct Genom Proteom 5(3):228–243
    • (2006) Brief Funct Genom Proteom , vol.5 , Issue.3 , pp. 228-243
    • Ausio, J.1
  • 5
    • 0033753779 scopus 로고    scopus 로고
    • The DNA methyltransferase of mammals
    • COI: 1:CAS:528:DC%2BD3cXnslGqs7k%3D, PID: 11005794
    • Bestor TH (2000) The DNA methyltransferase of mammals. Hum Mol Genet 9(16):2395–2402
    • (2000) Hum Mol Genet , vol.9 , Issue.16 , pp. 2395-2402
    • Bestor, T.H.1
  • 6
    • 0036144048 scopus 로고    scopus 로고
    • DNA methylation patterns and epigenetic memory
    • COI: 1:CAS:528:DC%2BD38Xos1ehsQ%3D%3D, PID: 11782440
    • 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
  • 7
    • 84870575235 scopus 로고    scopus 로고
    • Histone H2A variants in nucleosomes and chromatin: more or less stable?
    • PID: 23002134
    • Bönisch C, Hake SB (2012) Histone H2A variants in nucleosomes and chromatin: more or less stable? Nucleic Acids Res 40(21):10719–10741
    • (2012) Nucleic Acids Res , vol.40 , Issue.21 , pp. 10719-10741
    • Bönisch, C.1    Hake, S.B.2
  • 8
    • 83855163995 scopus 로고    scopus 로고
    • Uncovering the role of 5-hydroxymethylcytosine in the epigenome
    • PID: 22083101
    • Branco MR, Ficz G, Reik W (2011) Uncovering the role of 5-hydroxymethylcytosine in the epigenome. Nat Rev Genet 13(1):7–13
    • (2011) Nat Rev Genet , vol.13 , Issue.1 , pp. 7-13
    • Branco, M.R.1    Ficz, G.2    Reik, W.3
  • 9
    • 68949136580 scopus 로고    scopus 로고
    • Pediatric brain tumors: mutations of two dioxygenases (hABH2 and hABH3) that directly repair alkylation damage
    • COI: 1:CAS:528:DC%2BD1MXps1Cjt7c%3D, PID: 19290481
    • Cetica V, Genitori L, Giunti L, Sanzo M, Bernini G, Massimino M, Sardi I (2009) Pediatric brain tumors: mutations of two dioxygenases (hABH2 and hABH3) that directly repair alkylation damage. J Neurooncol 94(2):195–201
    • (2009) J Neurooncol , vol.94 , Issue.2 , pp. 195-201
    • Cetica, V.1    Genitori, L.2    Giunti, L.3    Sanzo, M.4    Bernini, G.5    Massimino, M.6    Sardi, I.7
  • 10
    • 84862994335 scopus 로고    scopus 로고
    • Effect of aging on 5-hydroxymethylcytosine in the mouse hippocampus
    • COI: 1:CAS:528:DC%2BC38Xns1ert78%3D, PID: 22426040
    • Chen H, Dzitoyeva S, Manev H (2012) Effect of aging on 5-hydroxymethylcytosine in the mouse hippocampus. Restor Neurol Neurosci 30(3):237–245
    • (2012) Restor Neurol Neurosci , vol.30 , Issue.3 , pp. 237-245
    • Chen, H.1    Dzitoyeva, S.2    Manev, H.3
  • 11
    • 81255143014 scopus 로고    scopus 로고
    • Epigenetic regulation of motor neuron cell death through DNA methylation
    • COI: 1:CAS:528:DC%2BC3MXhsFaksLzO, PID: 22090490
    • Chestnut BA, Chang Q, Price A, Lesuisse C, Wong M, Martin LM (2011) Epigenetic regulation of motor neuron cell death through DNA methylation. J Neurosci 31(46):16619–16636
    • (2011) J Neurosci , vol.31 , Issue.46 , pp. 16619-16636
    • Chestnut, B.A.1    Chang, Q.2    Price, A.3    Lesuisse, C.4    Wong, M.5    Martin, L.M.6
  • 12
    • 79960144827 scopus 로고    scopus 로고
    • Epigenetics: A new bridge between nutrition and health
    • COI: 1:CAS:528:DC%2BC3MXpsF2ltbc%3D, PID: 22043447
    • Choi SW, Friso S (2010) Epigenetics: A new bridge between nutrition and health. Adv Nutr 1:8–16
    • (2010) Adv Nutr , vol.1 , pp. 8-16
    • Choi, S.W.1    Friso, S.2
  • 13
    • 70349655631 scopus 로고    scopus 로고
    • Histone H1 subtypes differentially modulate chromatin condensation without preventing ATP-Dependent remodeling by SWI/SNF or NURF
    • PID: 19794910
    • Clausell J, Happel N, Hale TK, Doenecke D, Beato M (2009) Histone H1 subtypes differentially modulate chromatin condensation without preventing ATP-Dependent remodeling by SWI/SNF or NURF. PLoS ONE 4(10):e0007243
    • (2009) PLoS ONE , vol.4 , Issue.10 , pp. e0007243
    • Clausell, J.1    Happel, N.2    Hale, T.K.3    Doenecke, D.4    Beato, M.5
  • 14
    • 78649281582 scopus 로고    scopus 로고
    • Changes in H2A.Z occupancy and DNA methylation during B-cell lymphomagenesis
    • COI: 1:CAS:528:DC%2BC3cXht12jsrnI, PID: 20709945
    • Conerly ML, Teves SS, Diolaiti D, Ulrich M, Eisenman RN, 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
  • 15
    • 84922007661 scopus 로고    scopus 로고
    • The cell: a molecular approach 2nd edn. Chapter 4
    • Sinauer Associates, Sunderland:
    • Cooper GM (2000) The cell: a molecular approach 2nd edn. Chapter 4, the organization of cellular genomes. Sinauer Associates, Sunderland
    • (2000) the organization of cellular genomes
    • Cooper, G.M.1
  • 16
    • 84862248102 scopus 로고    scopus 로고
    • Folate and DNA methylation: a review of molecular mechanisms and the evidence for folate’s role
    • Crider KS, Yang TP, Berry RJ, Bailey LB (2012) Folate and DNA methylation: a review of molecular mechanisms and the evidence for folate’s role. Adv Nutr 3:1–38
    • (2012) Adv Nutr , vol.3 , pp. 1-38
    • Crider, K.S.1    Yang, T.P.2    Berry, R.J.3    Bailey, L.B.4
  • 17
    • 80555127349 scopus 로고    scopus 로고
    • DNA unwinding by ASCC3 helicase is coupled to ALKBH3-dependent DNA alkylation repair and cancer proliferation
    • COI: 1:CAS:528:DC%2BC3MXhsVaqtLvI, PID: 22055184
    • Dango S, Mosammaparast N, Sowa ME, Xiong LJ, Wu F, Park K, Rubin M, Gygi S, Harper KW, Shi Y (2011) DNA unwinding by ASCC3 helicase is coupled to ALKBH3-dependent DNA alkylation repair and cancer proliferation. Mol Cell 44(3):373–384
    • (2011) Mol Cell , vol.44 , Issue.3 , pp. 373-384
    • Dango, S.1    Mosammaparast, N.2    Sowa, M.E.3    Xiong, L.J.4    Wu, F.5    Park, K.6    Rubin, M.7    Gygi, S.8    Harper, K.W.9    Shi, Y.10
  • 18
    • 79956330964 scopus 로고    scopus 로고
    • CpG islands and the regulation of transcription
    • COI: 1:CAS:528:DC%2BC3MXmslOgsLY%3D, PID: 21576262
    • Deaton AM, Bird A (2011) CpG islands and the regulation of transcription. Genes and Dev 25:1010–1022
    • (2011) Genes and Dev , vol.25 , pp. 1010-1022
    • Deaton, A.M.1    Bird, A.2
  • 19
    • 77954257060 scopus 로고    scopus 로고
    • Methods for analysis DNA methylation
    • Coleman WB, Tsongalis GJ, (eds), Humana Press, New York:
    • Dobrovic A (2010) Methods for analysis DNA methylation. In: Coleman WB, Tsongalis GJ (eds) Molecular diagnostics for the clinical laboratorian, 2nd edn. Humana Press, New York, pp 149–160
    • (2010) Molecular diagnostics for the clinical laboratorian , pp. 149-160
    • Dobrovic, A.1
  • 20
    • 2642531973 scopus 로고    scopus 로고
    • Epigenetics in human disease and prospects for epigenetic therapy
    • COI: 1:CAS:528:DC%2BD2cXkt1Onsb0%3D, PID: 15164071
    • Egger G, Liang G, Aparicio A, Jones PA (2004) Epigenetics in human disease and prospects for epigenetic therapy. Nature 429(6990):457–463
    • (2004) Nature , vol.429 , Issue.6990 , pp. 457-463
    • Egger, G.1    Liang, G.2    Aparicio, A.3    Jones, P.A.4
  • 21
    • 33748998743 scopus 로고    scopus 로고
    • Identification of DNMT1 (DNA methyltransferase 1) hypomorphs in somatic knockouts suggests an essential role for DNMT1 in cell survival
    • COI: 1:CAS:528:DC%2BD28XhtVCmur%2FM, PID: 16963560
    • Egger G, Jeong S, Escobar SG, Cortez CC, Li TW, Saito Y, Yoo CB, Jones PA, Liang G (2006) Identification of DNMT1 (DNA methyltransferase 1) hypomorphs in somatic knockouts suggests an essential role for DNMT1 in cell survival. Proc Natl Acad Sci USA 103(38):14080–14085
    • (2006) Proc Natl Acad Sci USA , vol.103 , Issue.38 , pp. 14080-14085
    • Egger, G.1    Jeong, S.2    Escobar, S.G.3    Cortez, C.C.4    Li, T.W.5    Saito, Y.6    Yoo, C.B.7    Jones, P.A.8    Liang, G.9
  • 22
    • 79959853446 scopus 로고    scopus 로고
    • Dissecting DNA hypermethylation in cancer
    • PID: 21146531
    • Estécio MRH, Issa JPJ (2011) Dissecting DNA hypermethylation in cancer. FEBS Lett 585:2078–2086
    • (2011) FEBS Lett , vol.585 , pp. 2078-2086
    • Estécio, M.R.H.1    Issa, J.P.J.2
  • 23
    • 8844281536 scopus 로고    scopus 로고
    • H2AZ alters the nucleosome surface to promote HP1alpha–mediated chromatin fibre folding
    • COI: 1:CAS:528:DC%2BD2cXhtVKht7vK, PID: 15546624
    • Fan JY, Rangasamy D, Luger K, Tremethick DJ (2004) H2AZ alters the nucleosome surface to promote HP1alpha–mediated chromatin fibre folding. Mol Cell 16(4):655–661
    • (2004) Mol Cell , vol.16 , Issue.4 , pp. 655-661
    • Fan, J.Y.1    Rangasamy, D.2    Luger, K.3    Tremethick, D.J.4
  • 24
    • 12344327774 scopus 로고    scopus 로고
    • Centromere DNA proteins and kinetochore assembly in vertebrate cells
    • COI: 1:CAS:528:DC%2BD2cXmtF2msrs%3D, PID: 15289663
    • Fukagawa T (2004) Centromere DNA proteins and kinetochore assembly in vertebrate cells. Chromosome Res 12(6):557–567
    • (2004) Chromosome Res , vol.12 , Issue.6 , pp. 557-567
    • Fukagawa, T.1
  • 25
    • 0038412822 scopus 로고    scopus 로고
    • The DNA methyltransferases associate with HP1 and the SUV39H1 histone methyltransferase
    • COI: 1:CAS:528:DC%2BD3sXjt1Ogt7o%3D, PID: 12711675
    • Fuks F, Hurd PJ, Deplus R, Kouzarides T (2003) The DNA methyltransferases associate with HP1 and the SUV39H1 histone methyltransferase. Nucleic Acids Res 31(9):2305–2312
    • (2003) Nucleic Acids Res , vol.31 , Issue.9 , pp. 2305-2312
    • Fuks, F.1    Hurd, P.J.2    Deplus, R.3    Kouzarides, T.4
  • 26
    • 78650826181 scopus 로고    scopus 로고
    • Tissue distribution of 5-hydroxymethylcytosine and search for active demethylation intermediates
    • COI: 1:CAS:528:DC%2BC3MXjvVSluw%3D%3D, PID: 21203455
    • Globisch D, Münzel M, Müller M, Michalakis S, Wagner M, Koch S, Brückl T, Biel M, Carell T (2010) Tissue distribution of 5-hydroxymethylcytosine and search for active demethylation intermediates. PLoS ONE 5(12):e15367
    • (2010) PLoS ONE , vol.5 , Issue.12 , pp. e15367
    • Globisch, D.1    Münzel, M.2    Müller, M.3    Michalakis, S.4    Wagner, M.5    Koch, S.6    Brückl, T.7    Biel, M.8    Carell, T.9
  • 29
    • 29144531244 scopus 로고    scopus 로고
    • Variant histone H2AZ is globally localized to the promoters of inactive yeast genes and regulates nucleosome positioning
    • PID: 16248679
    • Guillemette B, Bataille AR, Gevry N, Adam M, Blanchette M, Robert F, Gaudreau L (2005) Variant histone H2AZ is globally localized to the promoters of inactive yeast genes and regulates nucleosome positioning. PLoS Biol 3(12):e384
    • (2005) PLoS Biol , vol.3 , Issue.12 , pp. e384
    • Guillemette, B.1    Bataille, A.R.2    Gevry, N.3    Adam, M.4    Blanchette, M.5    Robert, F.6    Gaudreau, L.7
  • 30
    • 79955538247 scopus 로고    scopus 로고
    • Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain
    • COI: 1:CAS:528:DC%2BC3MXlsFShsrs%3D, PID: 21496894
    • Guo JU, Su Y, Zhong C, Ming GL, Song H (2011) Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain. Cell 145(3):423–434
    • (2011) Cell , vol.145 , Issue.3 , pp. 423-434
    • Guo, J.U.1    Su, Y.2    Zhong, C.3    Ming, G.L.4    Song, H.5
  • 31
    • 84869479565 scopus 로고    scopus 로고
    • DNA methylation dynamics during the mammalian life cycle
    • PID: 23166392
    • Hackett JA, Surani MA (2013) DNA methylation dynamics during the mammalian life cycle. Phil Trans R Soc B 368:20110328
    • (2013) Phil Trans R Soc B , vol.368 , pp. 20110328
    • Hackett, J.A.1    Surani, M.A.2
  • 32
    • 0036089388 scopus 로고    scopus 로고
    • Conformational dynamics of the chromatin fiber in solution: determinants mechanisms and functions
    • COI: 1:CAS:528:DC%2BD38XltVynu7o%3D
    • Hansen JC (2002) Conformational dynamics of the chromatin fiber in solution: determinants mechanisms and functions. Ann Rev Biophys Biomol Struct 31:361–392
    • (2002) Ann Rev Biophys Biomol Struct , vol.31 , pp. 361-392
    • Hansen, J.C.1
  • 34
    • 84856707495 scopus 로고    scopus 로고
    • Using DNA methylation to understand biological consequences of genetic variability
    • COI: 1:CAS:528:DC%2BC38XhvFagsbs%3D, PID: 22123027
    • Hernandez DG, Singleton AB (2012) Using DNA methylation to understand biological consequences of genetic variability. Neurodegener Dis 9(2):53–59
    • (2012) Neurodegener Dis , vol.9 , Issue.2 , pp. 53-59
    • Hernandez, D.G.1    Singleton, A.B.2
  • 37
    • 82655187105 scopus 로고    scopus 로고
    • Generation and replication-dependent dilution of 5fC and 5caC during mouse preimplantation development
    • COI: 1:CAS:528:DC%2BC3MXhsFKms7nK, PID: 22124233
    • Inoue A, Shen L, Dai Q, He C, Zhang Y (2011) Generation and replication-dependent dilution of 5fC and 5caC during mouse preimplantation development. Cell Res 21(12):1670–1676
    • (2011) Cell Res , vol.21 , Issue.12 , pp. 1670-1676
    • Inoue, A.1    Shen, L.2    Dai, Q.3    He, C.4    Zhang, Y.5
  • 38
    • 77956189495 scopus 로고    scopus 로고
    • Role of Tet proteins in 5mC to 5hmC conversion ES-cell self-renewal and inner cell mass specification
    • COI: 1:CAS:528:DC%2BC3cXovFCntro%3D, PID: 20639862
    • Ito S, D’Alessio AC, Taranova OV, Hong K, Lawrence C, Sowers L, Zhang Y (2010) Role of Tet proteins in 5mC to 5hmC conversion ES-cell self-renewal and inner cell mass specification. Nature 466(7310):1129–1133
    • (2010) Nature , vol.466 , Issue.7310 , pp. 1129-1133
    • Ito, S.1    D’Alessio, A.C.2    Taranova, O.V.3    Hong, K.4    Lawrence, C.5    Sowers, L.6    Zhang, Y.7
  • 39
    • 80052461558 scopus 로고    scopus 로고
    • Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
    • COI: 1:CAS:528:DC%2BC3MXhtV2jt7nN, PID: 21778364
    • Ito S, Shen L, Dai Q, Wu SC, Collins LB, Swenberg JA, He C, Zhang Y (2011) Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science 333(6047):1300–1303
    • (2011) Science , vol.333 , Issue.6047 , 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
  • 40
    • 66749152204 scopus 로고    scopus 로고
    • Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids
    • COI: 1:CAS:528:DC%2BD1MXptFehtb4%3D, PID: 19411852
    • Iyer LM, Tahiliani M, Rao A, Aravind L (2009) Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids. Cell Cycle 8(11):1698–1710
    • (2009) Cell Cycle , vol.8 , Issue.11 , pp. 1698-1710
    • Iyer, L.M.1    Tahiliani, M.2    Rao, A.3    Aravind, L.4
  • 42
    • 84865587194 scopus 로고    scopus 로고
    • Environmental triggers and epigenetic deregulation in autoimmune disease
    • PID: 22204770
    • Javierre BM, Hernando H, Ballestar E (2011) Environmental triggers and epigenetic deregulation in autoimmune disease. Discov Med. 12(67):535–545
    • (2011) Discov Med. , vol.12 , Issue.67 , pp. 535-545
    • Javierre, B.M.1    Hernando, H.2    Ballestar, E.3
  • 43
    • 77954362183 scopus 로고    scopus 로고
    • Examination of the specificity of DNA methylation profiling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine
    • PID: 20371518
    • Jin SG, Kadam S, Pfeifer GP (2010) Examination of the specificity of DNA methylation profiling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine. Nucleic Acids Res 38(11):e125
    • (2010) Nucleic Acids Res , vol.38 , Issue.11 , pp. e125
    • Jin, S.G.1    Kadam, S.2    Pfeifer, G.P.3
  • 44
    • 80054790080 scopus 로고    scopus 로고
    • DNA Methylation: superior or subordinate in the epigenetic hierarchy?
    • COI: 1:CAS:528:DC%2BC3MXhtlCgu7jM, PID: 21941617
    • Jin B, Li Y, Robertson KD (2011) DNA Methylation: superior or subordinate in the epigenetic hierarchy? Genes Cancer 2(6):607–617
    • (2011) Genes Cancer , vol.2 , Issue.6 , pp. 607-617
    • Jin, B.1    Li, Y.2    Robertson, K.D.3
  • 45
    • 84863986133 scopus 로고    scopus 로고
    • Functions of DNA methylation: islands, start sites, gene bodies and beyond
    • COI: 1:CAS:528:DC%2BC38Xns1SqtLw%3D, PID: 22641018
    • Jones PA (2012) Functions of DNA methylation: islands, start sites, gene bodies and beyond. Nat Rev Genet 13(7):484–492
    • (2012) Nat Rev Genet , vol.13 , Issue.7 , pp. 484-492
    • Jones, P.A.1
  • 46
    • 13244255650 scopus 로고    scopus 로고
    • Histone variants: deviants?
    • COI: 1:CAS:528:DC%2BD2MXht12htLw%3D, PID: 15687254
    • Kamakaka RT, Biggins S (2005) Histone variants: deviants? Genes Dev 19(3):295–310
    • (2005) Genes Dev , vol.19 , Issue.3 , pp. 295-310
    • Kamakaka, R.T.1    Biggins, S.2
  • 49
    • 84886860116 scopus 로고    scopus 로고
    • TET enzymes, TDG and dynamics of DNA demethylation
    • COI: 1:CAS:528:DC%2BC3sXhs1KrurzF, PID: 24153300
    • Kohli RM, Zhang Y (2013) TET enzymes, TDG and dynamics of DNA demethylation. Nature 502(7472):472–479
    • (2013) Nature , vol.502 , Issue.7472 , pp. 472-479
    • Kohli, R.M.1    Zhang, Y.2
  • 50
    • 4644343184 scopus 로고    scopus 로고
    • Demethylation of 3-methylthymine in DNA by bacterial and human DNA dioxygenases
    • COI: 1:CAS:528:DC%2BD2cXnslWnsLY%3D, PID: 15269201
    • Koivisto P, Robins P, Lindahl T, Sedgwick B (2004) Demethylation of 3-methylthymine in DNA by bacterial and human DNA dioxygenases. J Biol Chem 279(39):40470–40474
    • (2004) J Biol Chem , vol.279 , Issue.39 , pp. 40470-40474
    • Koivisto, P.1    Robins, P.2    Lindahl, T.3    Sedgwick, B.4
  • 51
    • 33847076849 scopus 로고    scopus 로고
    • Chromatin modifications and their function
    • COI: 1:CAS:528:DC%2BD2sXis12ju7Y%3D, PID: 17320507
    • Kouzarides T (2007) Chromatin modifications and their function. Cell 128(4):693–705
    • (2007) Cell , vol.128 , Issue.4 , pp. 693-705
    • Kouzarides, T.1
  • 52
    • 66149123748 scopus 로고    scopus 로고
    • The nuclear DNA base 5-hydroxymethylcytosine is present in brain and enriched in Purkinje neurons
    • COI: 1:CAS:528:DC%2BD1MXlslWnurk%3D, PID: 19372393
    • Kriaucionis S, Heintz N (2009) The nuclear DNA base 5-hydroxymethylcytosine is present in brain and enriched in Purkinje neurons. Science 324(5929):929–930
    • (2009) Science , vol.324 , Issue.5929 , pp. 929-930
    • Kriaucionis, S.1    Heintz, N.2
  • 54
    • 0036733675 scopus 로고    scopus 로고
    • Chromatin modification and epigenetic reprogramming in mammalian development
    • Li E (2002) Chromatin modification and epigenetic reprogramming in mammalian development. Nat Rev Genet 3(9):662–673
    • (2002) Nat Rev Genet , vol.3 , Issue.9 , pp. 662-673
    • Li, E.1
  • 55
    • 84860006823 scopus 로고    scopus 로고
    • Dietary and lifestyle factors of DNA methylation
    • Lim U, Song MA (2012) Dietary and lifestyle factors of DNA methylation. Methods Mol Biol 863:359–376
    • (2012) Methods Mol Biol , vol.863 , pp. 359-376
    • Lim, U.1    Song, M.A.2
  • 58
    • 0242407193 scopus 로고    scopus 로고
    • Phylogenomics of the nucleosome
    • COI: 1:CAS:528:DC%2BD3sXosVCjtbs%3D, PID: 14583738
    • Malik HS, Henikoff S (2003) Phylogenomics of the nucleosome. Nat Struct Biol 10:882–891
    • (2003) Nat Struct Biol , vol.10 , pp. 882-891
    • Malik, H.S.1    Henikoff, S.2
  • 60
    • 79955675256 scopus 로고    scopus 로고
    • Diet induced epigenetic changes and their implications for health
    • COI: 1:CAS:528:DC%2BC3MXmvFGls78%3D
    • McKay JA, Mathers JC (2011) Diet induced epigenetic changes and their implications for health. Acta Physiol 202:103–118
    • (2011) Acta Physiol , vol.202 , pp. 103-118
    • McKay, J.A.1    Mathers, J.C.2
  • 62
    • 27144510368 scopus 로고    scopus 로고
    • Genome-scale profiling of histone H3.3 replacement patterns
    • COI: 1:CAS:528:DC%2BD2MXhtVCntL7F, PID: 16155569
    • Mito Y, Henikoff JG, Henikoff S (2005) Genome-scale profiling of histone H3.3 replacement patterns. Nat Genet 37:1090–1097
    • (2005) Nat Genet , vol.37 , pp. 1090-1097
    • Mito, Y.1    Henikoff, J.G.2    Henikoff, S.3
  • 63
    • 84869096444 scopus 로고    scopus 로고
    • DNA methylation and its basic function
    • COI: 1:CAS:528:DC%2BC38Xhs1ynurbM, PID: 22781841
    • Moore LD, Le T, Fan G (2013) DNA methylation and its basic function. Neuropsychopharmacology Reviews 38:23–38
    • (2013) Neuropsychopharmacology Reviews , vol.38 , pp. 23-38
    • Moore, L.D.1    Le, T.2    Fan, G.3
  • 66
    • 28244477551 scopus 로고    scopus 로고
    • Activation of a methylated promoter mediated by a sequence-specific DNA-binding protein, RFX
    • COI: 1:CAS:528:DC%2BD2MXht1emsr3I, PID: 16166088
    • Niesen MI, Osborne AR, Yang H, Rastogi S, Chellappan S, Cheng JQ, Boss JM, Blanck G (2005) Activation of a methylated promoter mediated by a sequence-specific DNA-binding protein, RFX. J Biol Chem 280:38914–38922
    • (2005) J Biol Chem , vol.280 , pp. 38914-38922
    • Niesen, M.I.1    Osborne, A.R.2    Yang, H.3    Rastogi, S.4    Chellappan, S.5    Cheng, J.Q.6    Boss, J.M.7    Blanck, G.8
  • 67
    • 45449114804 scopus 로고    scopus 로고
    • The colorful history of active DNA demethylation
    • COI: 1:CAS:528:DC%2BD1cXosFWku7o%3D, PID: 18585349
    • Ooi SK, Bestor TH (2008) The colorful history of active DNA demethylation. Cell 133(7):1145–1148
    • (2008) Cell , vol.133 , Issue.7 , pp. 1145-1148
    • Ooi, S.K.1    Bestor, T.H.2
  • 68
    • 0015298215 scopus 로고
    • The presence of 5-hydroxymethylcytosine in animal deoxyribonucleic acid
    • COI: 1:CAS:528:DyaE38XhtV2gsLY%3D, PID: 4538516
    • Penn NW, Suwalski R, O’Riley C, Bojanowski K, Yura R (1972) The presence of 5-hydroxymethylcytosine in animal deoxyribonucleic acid. Biochem J 126(4):781–790
    • (1972) Biochem J , vol.126 , Issue.4 , pp. 781-790
    • Penn, N.W.1    Suwalski, R.2    O’Riley, C.3    Bojanowski, K.4    Yura, R.5
  • 70
    • 60949096069 scopus 로고    scopus 로고
    • Epigenetic inheritance during the cell cycle
    • COI: 1:CAS:528:DC%2BD1MXitFKlsr4%3D, PID: 19234478
    • Probst AV, Dunleavy E, Almouzni G (2009) Epigenetic inheritance during the cell cycle. Nat Rev Mol Cell Biol 10(3):192–206
    • (2009) Nat Rev Mol Cell Biol , vol.10 , Issue.3 , pp. 192-206
    • Probst, A.V.1    Dunleavy, E.2    Almouzni, G.3
  • 71
    • 27144504752 scopus 로고    scopus 로고
    • Histones in functional diversification core histone variants
    • COI: 1:CAS:528:DC%2BD2MXhtFGqtbjP, PID: 16218948
    • Pusarla RH, Bhargava P (2005) Histones in functional diversification core histone variants. FEBS J 272(20):5149–5168
    • (2005) FEBS J , vol.272 , Issue.20 , pp. 5149-5168
    • Pusarla, R.H.1    Bhargava, P.2
  • 72
    • 84865061978 scopus 로고    scopus 로고
    • Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase
    • PID: 22902005
    • Raiber E, Beraldi D, Ficz G, Burgess HE, Branco MR, Murat P, Oxley P, Booth MJ, Reik W, Balasubramanian S (2012) Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase. Genome Biol 13(8):R69
    • (2012) Genome Biol , vol.13 , Issue.8 , pp. R69
    • Raiber, E.1    Beraldi, D.2    Ficz, G.3    Burgess, H.E.4    Branco, M.R.5    Murat, P.6    Oxley, P.7    Booth, M.J.8    Reik, W.9    Balasubramanian, S.10
  • 73
  • 74
    • 0347719444 scopus 로고    scopus 로고
    • Methylation and epigenetic fidelity
    • COI: 1:CAS:528:DC%2BD2cXjvFajsQ%3D%3D, PID: 14695893
    • Riggs AD, Xiong Z (2004) Methylation and epigenetic fidelity. Proc Natl Acad Sci USA 101(1):4–5
    • (2004) Proc Natl Acad Sci USA , vol.101 , Issue.1 , pp. 4-5
    • Riggs, A.D.1    Xiong, Z.2
  • 75
    • 0035962631 scopus 로고    scopus 로고
    • DNA methylation methyltransferases and cancer
    • COI: 1:CAS:528:DC%2BD3MXks1Glu70%3D, PID: 11420731
    • Robertson KD (2001) DNA methylation methyltransferases and cancer. Oncogene 20(24):3139–3155
    • (2001) Oncogene , vol.20 , Issue.24 , pp. 3139-3155
    • Robertson, K.D.1
  • 76
    • 82855176833 scopus 로고    scopus 로고
    • Epigenetic reprogramming in mouse pre-implantation development and primordial germ cells
    • COI: 1:CAS:528:DC%2BC38XhvFKgtb4%3D, PID: 22147951
    • Saitou M, Kagiwada S, Kurimoto K (2012) Epigenetic reprogramming in mouse pre-implantation development and primordial germ cells. Development 139(1):15–31
    • (2012) Development , vol.139 , Issue.1 , pp. 15-31
    • Saitou, M.1    Kagiwada, S.2    Kurimoto, K.3
  • 77
    • 55449090888 scopus 로고    scopus 로고
    • Depletion of human H1 variants uncovers specific roles in gene expression and cell growth
    • PID: 18927631
    • Sancho M, Diani E, Beato M, Jordan A (2008) Depletion of human H1 variants uncovers specific roles in gene expression and cell growth. PLoS Genet 4(10):e1000227
    • (2008) PLoS Genet , vol.4 , Issue.10 , pp. e1000227
    • Sancho, M.1    Diani, E.2    Beato, M.3    Jordan, A.4
  • 78
    • 33845528560 scopus 로고    scopus 로고
    • Implication of abnormal epigenetic patterns for human diseases
    • Santos-Rebouc CB, Pimentel MMG (2007) Implication of abnormal epigenetic patterns for human diseases. Eur J Hum Genet 15:10–17
    • (2007) Eur J Hum Genet , vol.15 , pp. 10-17
    • Santos-Rebouc, C.B.1    Pimentel, M.M.G.2
  • 79
    • 77955884641 scopus 로고    scopus 로고
    • RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage
    • COI: 1:CAS:528:DC%2BC3cXhtVeitrvJ, PID: 20679393
    • Schaefer M, Pollex T, Hanna K, Tuorto F, Meusburger M, Helm M, Lyko F (2010) RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage. Genes Dev 24(15):1590–1595
    • (2010) Genes Dev , vol.24 , Issue.15 , pp. 1590-1595
    • Schaefer, M.1    Pollex, T.2    Hanna, K.3    Tuorto, F.4    Meusburger, M.5    Helm, M.6    Lyko, F.7
  • 80
    • 79959736810 scopus 로고    scopus 로고
    • H3.5 is a novel hominid-specific histone H3 variant that is specifically expressed in the seminiferous tubules of human testes
    • COI: 1:CAS:528:DC%2BC3MXmsVams7k%3D, PID: 21274551
    • Schenk R, Jenke A, Zilbauer M, Wirth S, Postberg J (2011) H3.5 is a novel hominid-specific histone H3 variant that is specifically expressed in the seminiferous tubules of human testes. Chromosoma 120(3):275–285
    • (2011) Chromosoma , vol.120 , Issue.3 , pp. 275-285
    • Schenk, R.1    Jenke, A.2    Zilbauer, M.3    Wirth, S.4    Postberg, J.5
  • 81
    • 84902182150 scopus 로고    scopus 로고
    • Mechanism and function of oxidative reversal of DNA and RNA methylation
    • COI: 1:CAS:528:DC%2BC2cXhtFOhtrnP, PID: 24905787
    • Shen L, Song CX, He C, Zhang Y (2014) Mechanism and function of oxidative reversal of DNA and RNA methylation. Annu Rev Biochem 83:585–614
    • (2014) Annu Rev Biochem , vol.83 , pp. 585-614
    • Shen, L.1    Song, C.X.2    He, C.3    Zhang, Y.4
  • 83
    • 34249066239 scopus 로고    scopus 로고
    • Functional cooperation between HP1 and DNMT1 mediates gene silencing
    • COI: 1:CAS:528:DC%2BD2sXls1aqu7w%3D, PID: 17470536
    • Smallwood A, Estève PO, Pradhan S, Carey M (2007) Functional cooperation between HP1 and DNMT1 mediates gene silencing. Genes Dev 21(10):1169–1178
    • (2007) Genes Dev , vol.21 , Issue.10 , pp. 1169-1178
    • Smallwood, A.1    Estève, P.O.2    Pradhan, S.3    Carey, M.4
  • 85
    • 79952053850 scopus 로고    scopus 로고
    • Structure of DNMT1-DNA complex reveals a role for autoinhibition in maintenance DNA methylation
    • COI: 1:CAS:528:DC%2BC3MXit1eitrk%3D, PID: 21163962
    • Song J, Rechkoblit O, Bestor TH, Patel DJ (2011) Structure of DNMT1-DNA complex reveals a role for autoinhibition in maintenance DNA methylation. Science 331(6020):1036–1040
    • (2011) Science , vol.331 , Issue.6020 , pp. 1036-1040
    • Song, J.1    Rechkoblit, O.2    Bestor, T.H.3    Patel, D.J.4
  • 87
    • 79959209733 scopus 로고    scopus 로고
    • 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells
    • Stroud H, Feng S, Kinney SM, Pradhan S, Jacobsen SE (2011) 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells. Genome Biol 12(6):R5433
    • (2011) Genome Biol , vol.12 , Issue.6 , pp. R5433
    • Stroud, H.1    Feng, S.2    Kinney, S.M.3    Pradhan, S.4    Jacobsen, S.E.5
  • 88
    • 79952536146 scopus 로고    scopus 로고
    • The double face of the histone variant H33
    • COI: 1:CAS:528:DC%2BC3MXivVCgu78%3D, PID: 21263457
    • Szenker E, Ray-Gallet D, Almouzni G (2011) The double face of the histone variant H33. Cell Res 21(3):421–434
    • (2011) Cell Res , vol.21 , Issue.3 , pp. 421-434
    • Szenker, E.1    Ray-Gallet, D.2    Almouzni, G.3
  • 91
    • 84865378667 scopus 로고    scopus 로고
    • Histone variant H2ABbd is associated with active transcription and mRNA processing in human cells
    • COI: 1:CAS:528:DC%2BC38XhtVOqtrrP, PID: 22795134
    • Tolstorukov MY, Goldman JA, Gilbert C, Ogryzko V, Kingston RE, Park PJ (2012) Histone variant H2ABbd is associated with active transcription and mRNA processing in human cells. Mol Cell 47(4):596–607
    • (2012) Mol Cell , vol.47 , Issue.4 , pp. 596-607
    • Tolstorukov, M.Y.1    Goldman, J.A.2    Gilbert, C.3    Ogryzko, V.4    Kingston, R.E.5    Park, P.J.6
  • 92
    • 33847055935 scopus 로고    scopus 로고
    • Endogenous cytosine damage products alter the site selectivity of human DNA maintenance methyltransferase DNMT1
    • COI: 1:CAS:528:DC%2BD2sXht1yntbw%3D, PID: 17283125
    • Valinluck V, Sowers LC (2007) Endogenous cytosine damage products alter the site selectivity of human DNA maintenance methyltransferase DNMT1. Cancer Res 67(3):946–950
    • (2007) Cancer Res , vol.67 , Issue.3 , pp. 946-950
    • Valinluck, V.1    Sowers, L.C.2
  • 93
    • 4043112183 scopus 로고    scopus 로고
    • Oxidative damage to methyl-CpG sequences inhibits the binding of the methyl-CpG binding domain (MBD) of methyl-CpG binding protein 2 (MeCP2)
    • COI: 1:CAS:528:DC%2BD2cXntFagu78%3D, PID: 15302911
    • Valinluck V, Tsai HH, Rogstad DK, Burdzy A, Bird A, Sowers LC (2004) Oxidative damage to methyl-CpG sequences inhibits the binding of the methyl-CpG binding domain (MBD) of methyl-CpG binding protein 2 (MeCP2). Nucleic Acids Res 32(14):4100–4108
    • (2004) Nucleic Acids Res , vol.32 , Issue.14 , pp. 4100-4108
    • Valinluck, V.1    Tsai, H.H.2    Rogstad, D.K.3    Burdzy, A.4    Bird, A.5    Sowers, L.C.6
  • 95
    • 84911475654 scopus 로고    scopus 로고
    • DNA methylation, epigenetics, and evolution in vertebrates: facts and challenges
    • Varriale A (2014) DNA methylation, epigenetics, and evolution in vertebrates: facts and challenges. Int J Evol Biol 475981:7
    • (2014) Int J Evol Biol , pp. 7
    • Varriale, A.1
  • 96
    • 84869880642 scopus 로고    scopus 로고
    • Human genes with CpG island promoters have a distinct transcription–associated chromatin organization
    • PID: 23186133
    • Vavouri T, Lehner B (2012) Human genes with CpG island promoters have a distinct transcription–associated chromatin organization. Genome Biol 13(11):R110
    • (2012) Genome Biol , vol.13 , Issue.11 , pp. R110
    • Vavouri, T.1    Lehner, B.2
  • 98
    • 84898883789 scopus 로고    scopus 로고
    • Histone variants: dynamic punctuation in transcription
    • COI: 1:CAS:528:DC%2BC2cXntVeiuro%3D, PID: 24696452
    • Weber CM, Henikoff S (2014) Histone variants: dynamic punctuation in transcription. Genes Dev 28:672–682
    • (2014) Genes Dev , vol.28 , pp. 672-682
    • Weber, C.M.1    Henikoff, S.2
  • 100
    • 0030589491 scopus 로고    scopus 로고
    • Testis-specific expression of a novel human H3 histone gene
    • COI: 1:CAS:528:DyaK2sXlt1Kntg%3D%3D, PID: 8986613
    • Witt O, Albig W, Doenecke D (1996) Testis-specific expression of a novel human H3 histone gene. Exp Cell Res 229(2):301–306
    • (1996) Exp Cell Res , vol.229 , Issue.2 , pp. 301-306
    • Witt, O.1    Albig, W.2    Doenecke, D.3
  • 101
    • 77956095231 scopus 로고    scopus 로고
    • Active DNA demethylation: many roads lead to Rome
    • COI: 1:CAS:528:DC%2BC3cXps1egtbY%3D, PID: 20683471
    • Wu SC, Zhang Y (2010) Active DNA demethylation: many roads lead to Rome. Nat Rev Mol Cell Biol 11(9):607–620
    • (2010) Nat Rev Mol Cell Biol , vol.11 , Issue.9 , pp. 607-620
    • Wu, S.C.1    Zhang, Y.2
  • 102
    • 79954457998 scopus 로고    scopus 로고
    • Genome-wide analysis of 5-hydroxymethylcytosine distribution reveals its dual function in transcriptional regulation in mouse embryonic stem cells
    • COI: 1:CAS:528:DC%2BC3MXkvFCrtb8%3D, PID: 21460036
    • Wu H, D’Alessio AC, Ito S, Wang Z, Cui K, Zhao K, Sun YE, Zhang Y (2011a) Genome-wide analysis of 5-hydroxymethylcytosine distribution reveals its dual function in transcriptional regulation in mouse embryonic stem cells. Genes Dev 25(7):679–684
    • (2011) Genes Dev , vol.25 , Issue.7 , 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
  • 103
    • 79952396926 scopus 로고    scopus 로고
    • Down-regulation of ALKBH2 increases cisplatin sensitivity in H1299
    • PID: 21278781
    • Wu SS, Xu W, Liu S, Chen B, Wang X, Wang Y, Liu S, Wu J (2011b) Down-regulation of ALKBH2 increases cisplatin sensitivity in H1299. Acta Pharmacol Sin 32(3):393–398
    • (2011) Acta Pharmacol Sin , vol.32 , Issue.3 , pp. 393-398
    • Wu, S.S.1    Xu, W.2    Liu, S.3    Chen, B.4    Wang, X.5    Wang, Y.6    Liu, S.7    Wu, J.8
  • 104
    • 34250317798 scopus 로고
    • A new pyrimidine base from bacteriophage nucleic acids
    • COI: 1:CAS:528:DyaG3sXisFOrsQ%3D%3D, PID: 13013321
    • Wyatt GR, Cohen SS (1952) A new pyrimidine base from bacteriophage nucleic acids. Nature 170:1072–1073
    • (1952) Nature , vol.170 , pp. 1072-1073
    • Wyatt, G.R.1    Cohen, S.S.2
  • 105
    • 77958150580 scopus 로고    scopus 로고
    • Targeting DNA methylation for epigenetic therapy
    • PID: 20846732
    • Yang X, Lay F, Han H, Jones PA (2010) Targeting DNA methylation for epigenetic therapy. Trends Pharmacol Sci 31(11):536–546
    • (2010) Trends Pharmacol Sci , vol.31 , Issue.11 , pp. 536-546
    • Yang, X.1    Lay, F.2    Han, H.3    Jones, P.A.4
  • 107
    • 84862776719 scopus 로고    scopus 로고
    • Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA
    • COI: 1:CAS:528:DC%2BC38XitFalsro%3D, PID: 22327402
    • Zhang L, Lu X, Lu J, Liang H, Dai Q, Xu GL, Luo C, Jiang H, He C (2012) Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA. Nat Chem Biol 8:328–330
    • (2012) Nat Chem Biol , vol.8 , pp. 328-330
    • Zhang, L.1    Lu, X.2    Lu, J.3    Liang, H.4    Dai, Q.5    Xu, G.L.6    Luo, C.7    Jiang, H.8    He, C.9
  • 108
    • 73349104113 scopus 로고    scopus 로고
    • Active DNA demethylation mediated by DNA glycosylases
    • COI: 1:CAS:528:DC%2BD1MXhsF2qtrjF, PID: 19659441
    • Zhu JK (2009) Active DNA demethylation mediated by DNA glycosylases. Annu Rev Genet 43:143–166
    • (2009) Annu Rev Genet , vol.43 , pp. 143-166
    • Zhu, J.K.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.