메뉴 건너뛰기




Volumn 7, Issue 10, 2012, Pages 1897-1908

The anti-CMS technique for genome-wide mapping of 5-hydroxymethylcytosine

Author keywords

[No Author keywords available]

Indexed keywords

5 HYDROXYMETHYLCYTOSINE; ANTISERUM; CYTOSINE 5 METHYLENESULFONATE; DNA FRAGMENT; GENOMIC DNA; SULFONIC ACID DERIVATIVE; UNCLASSIFIED DRUG;

EID: 84869075314     PISSN: 17542189     EISSN: 17502799     Source Type: Journal    
DOI: 10.1038/nprot.2012.103     Document Type: Article
Times cited : (82)

References (43)
  • 1
    • 79952535798 scopus 로고    scopus 로고
    • Genomic imprinting in mammals: Its life cycle, molecular mechanisms and reprogramming
    • Li, Y. & Sasaki, H. Genomic imprinting in mammals: its life cycle, molecular mechanisms and reprogramming. Cell Res. 21, 466-473 (2011).
    • (2011) Cell Res. , vol.21 , pp. 466-473
    • Li, Y.1    Sasaki, H.2
  • 2
    • 0035158704 scopus 로고    scopus 로고
    • Loss of genomic methylation causes p53-dependent apoptosis and epigenetic deregulation
    • Jackson-Grusby, L. et al. Loss of genomic methylation causes p53-dependent apoptosis and epigenetic deregulation. Nat. Genet. 27, 31-39 (2001).
    • (2001) Nat. Genet. , vol.27 , pp. 31-39
    • Jackson-Grusby, L.1
  • 3
    • 0031662164 scopus 로고    scopus 로고
    • Transcription of IAP endogenous retroviruses is constrained by cytosine methylation
    • Walsh, C.P., Chaillet, J.R. & Bestor, T.H. Transcription of IAP endogenous retroviruses is constrained by cytosine methylation. Nat. Genet 20, 116-117 (1998).
    • (1998) Nat. Genet , vol.20 , pp. 116-117
    • Walsh, C.P.1    Chaillet, J.R.2    Bestor, T.H.3
  • 4
    • 4544223707 scopus 로고    scopus 로고
    • Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3L
    • Bourc'his, D. & Bestor, T.H. Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3L. Nature 431, 96-99 (2004).
    • (2004) Nature , vol.431 , pp. 96-99
    • Bourc'His, D.1    Bestor, T.H.2
  • 5
    • 66149146320 scopus 로고    scopus 로고
    • Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1
    • Tahiliani, M. et al. Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science 324, 930-935 (2009).
    • (2009) Science , vol.324 , pp. 930-935
    • Tahiliani, M.1
  • 6
    • 77956189495 scopus 로고    scopus 로고
    • Role of tet proteins in 5mC to 5hmC conversion ES-cell self-renewal and inner cell mass specifcation
    • Ito, S. et al. Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specifcation. Nature 466, 1129-1133 (2010).
    • (2010) Nature , vol.466 , pp. 1129-1133
    • Ito, S.1
  • 7
    • 66149123748 scopus 로고    scopus 로고
    • The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain
    • Kriaucionis, S. & Heintz, N. The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain. Science 324, 929-930 (2009).
    • (2009) Science , vol.324 , pp. 929-930
    • Kriaucionis, S.1    Heintz, N.2
  • 8
    • 77954842819 scopus 로고    scopus 로고
    • Quantifcation of the sixth DNA base hydroxymethylcytosine in the brain
    • Munzel, M. et al. Quantifcation of the sixth DNA base hydroxymethylcytosine in the brain. Angew. Chem. Int. Ed. Engl. 49, 5375-5377 (2010).
    • (2010) Angew. Chem. Int. Ed. Engl. , vol.49 , pp. 5375-5377
    • Munzel, M.1
  • 9
    • 80052461558 scopus 로고    scopus 로고
    • Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
    • Ito, S. et al. Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science 333, 1300-1303 (2011).
    • (2011) Science , vol.333 , pp. 1300-1303
    • Ito, S.1
  • 10
    • 33847055935 scopus 로고    scopus 로고
    • Endogenous cytosine damage products alter the site selectivity of human DNA maintenance methyltransferase DNMT1
    • Valinluck, V. & Sowers, L.C. Endogenous cytosine damage products alter the site selectivity of human DNA maintenance methyltransferase DNMT1. Cancer Res. 67, 946-950 (2007).
    • (2007) Cancer Res. , vol.67 , pp. 946-950
    • Valinluck, V.1    Sowers, L.C.2
  • 11
    • 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)
    • Valinluck, V. et al. 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, 4100-4108 (2004).
    • (2004) Nucleic Acids Res. , vol.32 , pp. 4100-4108
    • Valinluck, V.1
  • 12
    • 77954362183 scopus 로고    scopus 로고
    • Examination of the specifcity of DNA methylation profling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine
    • Jin, S.G., Kadam, S. & Pfeifer, G.P. Examination of the specifcity of DNA methylation profling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine. Nucleic Acids Res. 38, e125 (2010).
    • (2010) Nucleic Acids Res. , vol.38
    • Jin, S.G.1    Kadam, S.2    Pfeifer, G.P.3
  • 13
    • 79960626636 scopus 로고    scopus 로고
    • The discovery of 5-formylcytosine in embryonic stem cell DNA
    • Pfaffeneder, T. et al. The discovery of 5-formylcytosine in embryonic stem cell DNA. Angew. Chem. Int. Ed. Engl. 50, 7008-7012 (2011).
    • (2011) Angew. Chem. Int. Ed. Engl. , vol.50 , pp. 7008-7012
    • Pfaffeneder, T.1
  • 14
    • 80052495940 scopus 로고    scopus 로고
    • Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA
    • He, Y.F. et al. Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science 333, 1303-1307 (2011).
    • (2011) Science , vol.333 , pp. 1303-1307
    • He, Y.F.1
  • 15
    • 80053917872 scopus 로고    scopus 로고
    • Thymine DNA glycosylase can rapidly excise 5-formylcytosine and 5-carboxylcytosine: Potential implications for active demethylation of CpG sites
    • Maiti, A. & Drohat, A.C. Thymine DNA glycosylase can rapidly excise 5-formylcytosine and 5-carboxylcytosine: potential implications for active demethylation of CpG sites. J. Biol. Chem. 286, 35334-35338 (2011).
    • (2011) J. Biol. Chem. , vol.286 , pp. 35334-35338
    • Maiti, A.1    Drohat, A.C.2
  • 16
    • 79551587102 scopus 로고    scopus 로고
    • Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specifcation in mouse embryonic stem cells
    • Koh, K.P. et al. Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specifcation in mouse embryonic stem cells. Cell Stem Cell 8, 200-213 (2011).
    • (2011) Cell Stem Cell , vol.8 , pp. 200-213
    • Koh, K.P.1
  • 17
    • 77953037018 scopus 로고    scopus 로고
    • Mutations of the TET2 and CBL genes: Novel molecular markers in myeloid malignancies
    • Bacher, U. et al. Mutations of the TET2 and CBL genes: novel molecular markers in myeloid malignancies. Ann. Hematol. 89, 643-652 (2010).
    • (2010) Ann. Hematol. , vol.89 , pp. 643-652
    • Bacher, U.1
  • 18
    • 79960062301 scopus 로고    scopus 로고
    • TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis
    • Quivoron, C. et al. TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis. Cancer Cell 20, 25-38 (2011).
    • (2011) Cancer Cell , vol.20 , pp. 25-38
    • Quivoron, C.1
  • 19
    • 79960064353 scopus 로고    scopus 로고
    • Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation
    • Moran-Crusio, K. et al. Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation. Cancer Cell 20, 11-24 (2011).
    • (2011) Cancer Cell , vol.20 , pp. 11-24
    • Moran-Crusio, K.1
  • 20
    • 80052285127 scopus 로고    scopus 로고
    • Deletion of Tet2 in mice leads to dysregulated hematopoietic stem cells and subsequent development of myeloid malignancies
    • Li, Z. et al. Deletion of Tet2 in mice leads to dysregulated hematopoietic stem cells and subsequent development of myeloid malignancies. Blood 118, 4509-4518 (2011).
    • (2011) Blood , vol.118 , pp. 4509-4518
    • Li, Z.1
  • 21
    • 80052284526 scopus 로고    scopus 로고
    • Ten-Eleven-Translocation 2 (TET2) negatively regulates homeostasis and differentiation of hematopoietic stem cells in mice
    • Ko, M. et al. Ten-Eleven-Translocation 2 (TET2) negatively regulates homeostasis and differentiation of hematopoietic stem cells in mice. Proc. Natl. Acad. Sci. USA 108, 14566-14571 (2011).
    • (2011) Proc. Natl. Acad. Sci. USA , vol.108 , pp. 14566-14571
    • Ko, M.1
  • 22
    • 78650175023 scopus 로고    scopus 로고
    • Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2
    • Ko, M. et al. Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2. Nature 468, 839-843 (2010).
    • (2010) Nature , vol.468 , pp. 839-843
    • Ko, M.1
  • 23
    • 84856058152 scopus 로고    scopus 로고
    • Global 5-hydroxymethylcytosine content is signifcantly reduced in tissue stem/progenitor cell compartments and in human cancers
    • Haffner, M.C. et al. Global 5-hydroxymethylcytosine content is signifcantly reduced in tissue stem/progenitor cell compartments and in human cancers. Oncotarget. 2, 627-637 (2011).
    • (2011) Oncotarget. , vol.2 , pp. 627-637
    • Haffner, M.C.1
  • 24
    • 79952713567 scopus 로고    scopus 로고
    • 5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming
    • Wossidlo, M. et al. 5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming. Nat. Commun. 2, 241 (2011).
    • (2011) Nat. Commun. , vol.2 , pp. 241
    • Wossidlo, M.1
  • 25
    • 80053348585 scopus 로고    scopus 로고
    • The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes
    • Gu, T.P. et al. The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes. Nature 477, 606-610 (2011).
    • (2011) Nature , vol.477 , pp. 606-610
    • Gu, T.P.1
  • 27
    • 79956308473 scopus 로고    scopus 로고
    • Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells
    • Pastor, W.A. et al. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature 473, 394-397 (2011).
    • (2011) Nature , vol.473 , pp. 394-397
    • Pastor, W.A.1
  • 28
    • 0014936031 scopus 로고
    • Reaction of sodium bisulfte with uracil, cytosine, and their derivatives
    • Hayatsu, H., Wataya, Y., Kai, K. & Iida, S. Reaction of sodium bisulfte with uracil, cytosine, and their derivatives. Biochemistry 9, 2858-2865 (1970).
    • (1970) Biochemistry , vol.9 , pp. 2858-2865
    • Hayatsu, H.1    Wataya, Y.2    Kai, K.3    Iida, S.4
  • 29
    • 0018796242 scopus 로고
    • Reaction of bisulfte with the 5-hydroxymethyl group in pyrimidines and in phage DNAs
    • Hayatsu, H. & Shiragami, M. Reaction of bisulfte with the 5-hydroxymethyl group in pyrimidines and in phage DNAs. Biochemistry 18, 632-637 (1979).
    • (1979) Biochemistry , vol.18 , pp. 632-637
    • Hayatsu, H.1    Shiragami, M.2
  • 30
    • 0026546877 scopus 로고
    • A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands
    • Frommer, M. et al. A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc. Natl. Acad. Sci. USA 89, 1827-1831 (1992).
    • (1992) Proc. Natl. Acad. Sci. USA , vol.89 , pp. 1827-1831
    • Frommer, M.1
  • 31
    • 77749277177 scopus 로고    scopus 로고
    • The behaviour of 5-hydroxymethylcytosine in bisulfte sequencing
    • Huang, Y. et al. The behaviour of 5-hydroxymethylcytosine in bisulfte sequencing. PLoS ONE 5, e8888 (2010).
    • (2010) PLoS ONE , vol.5
    • Huang, Y.1
  • 32
    • 23044514626 scopus 로고    scopus 로고
    • Chromosome-wide and promoter-specifc analyses identify sites of differential DNA methylation in normal and transformed human cells
    • Weber, M. et al. Chromosome-wide and promoter-specifc analyses identify sites of differential DNA methylation in normal and transformed human cells. Nat. Genet. 37, 853-862 (2005).
    • (2005) Nat. Genet. , vol.37 , pp. 853-862
    • Weber, M.1
  • 33
    • 77952355762 scopus 로고    scopus 로고
    • Genome-wide evolutionary analysis of eukaryotic DNA methylation
    • Zemach, A., McDaniel, I.E., Silva, P. & Zilberman, D. Genome-wide evolutionary analysis of eukaryotic DNA methylation. Science 328, 916-919 (2010).
    • (2010) Science , vol.328 , pp. 916-919
    • Zemach, A.1    McDaniel, I.E.2    Silva, P.3    Zilberman, D.4
  • 34
    • 79954457998 scopus 로고    scopus 로고
    • Genome-wide analysis of 5-hydroxymethylcytosine distribution reveals its dual function in transcriptional regulation in mouse embryonic stem cells
    • Wu, H. et al. Genome-wide analysis of 5-hydroxymethylcytosine distribution reveals its dual function in transcriptional regulation in mouse embryonic stem cells. Genes Dev. 25, 679-684 (2011).
    • (2011) Genes Dev. , vol.25 , pp. 679-684
    • Wu, H.1
  • 35
    • 79956302047 scopus 로고    scopus 로고
    • TET1 and hydroxymethylcytosine in transcription and DNA methylation fdelity
    • Williams, K. et al. TET1 and hydroxymethylcytosine in transcription and DNA methylation fdelity. Nature 473, 343-348 (2011).
    • (2011) Nature , vol.473 , pp. 343-348
    • Williams, K.1
  • 36
    • 79956323623 scopus 로고    scopus 로고
    • Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation
    • Ficz, G. et al. Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation. Nature 473, 398-402 (2011).
    • (2011) Nature , vol.473 , pp. 398-402
    • Ficz, G.1
  • 37
    • 79955948324 scopus 로고    scopus 로고
    • Genome-wide regulation of 5hm C, 5m C, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells
    • Xu, Y. et al. Genome-wide regulation of 5hm C, 5m C, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells. Mol. Cell 42, 451-464 (2011).
    • (2011) Mol. Cell , vol.42 , pp. 451-464
    • Xu, Y.1
  • 39
    • 84861221693 scopus 로고    scopus 로고
    • Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
    • Booth, M.J. et al. Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution. Science 336, 934-937 (2012).
    • (2012) Science , vol.336 , pp. 934-937
    • Booth, M.J.1
  • 40
    • 84856453032 scopus 로고    scopus 로고
    • Sensitive and specifc single-molecule sequencing of 5- hydroxymethylcytosine
    • Song, C.X. et al. Sensitive and specifc single-molecule sequencing of 5-hydroxymethylcytosine. Nat. Methods 9, 75-77 (2012).
    • (2012) Nat. Methods , vol.9 , pp. 75-77
    • Song, C.X.1
  • 41
    • 84861990517 scopus 로고    scopus 로고
    • Base-resolution analysis of 5-hydroxymethylcytosine in the Mammalian genome
    • Yu, M. et al. Base-resolution analysis of 5-hydroxymethylcytosine in the Mammalian genome. Cell 149, 1368-1380 (2012).
    • (2012) Cell , vol.149 , pp. 1368-1380
    • Yu, M.1
  • 42
    • 0343407375 scopus 로고
    • Glucosylation of deoxyribonucleic acid by enzymes from bacteriophage-infected Escherichia coli
    • Kornberg, S.R., Zimmerman, S.B. & Kornberg, A. Glucosylation of deoxyribonucleic acid by enzymes from bacteriophage-infected Escherichia coli. J. Biol. Chem. 236, 1487-1493 (1961).
    • (1961) J. Biol. Chem. , vol.236 , pp. 1487-1493
    • Kornberg, S.R.1    Zimmerman, S.B.2    Kornberg, A.3
  • 43
    • 70450217879 scopus 로고    scopus 로고
    • Human DNA methylomes at base resolution show widespread epigenomic differences
    • Lister, R. et al. Human DNA methylomes at base resolution show widespread epigenomic differences. Nature 462, 315-322 (2009).
    • (2009) Nature , vol.462 , pp. 315-322
    • Lister, R.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.