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Volumn 37, Issue 12, 2009, Pages 3829-3839

High-resolution genome-wide cytosine methylation profiling with simultaneous copy number analysis and optimization for limited cell numbers

Author keywords

[No Author keywords available]

Indexed keywords

CYTOSINE; RESTRICTION ENDONUCLEASE; TYPE II SITE SPECIFIC DEOXYRIBONUCLEASE;

EID: 67651149735     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkp260     Document Type: Article
Times cited : (134)

References (34)
  • 1
    • 23044514626 scopus 로고    scopus 로고
    • Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells
    • Weber,M., Davies,J.J., Wittig,D., Oakeley,E.J., Haase,M., Lam,W.L. and Schubeler,D. (2005) Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells. Nat. Genet., 37, 853-862.
    • (2005) Nat. Genet , vol.37 , pp. 853-862
    • Weber, M.1    Davies, J.J.2    Wittig, D.3    Oakeley, E.J.4    Haase, M.5    Lam, W.L.6    Schubeler, D.7
  • 3
    • 33748055105 scopus 로고    scopus 로고
    • MIRA-assisted microarray analysis, a new technology for the determination of DNA methylation patterns, identifies frequent methylation of homeodomain-containing genes in lung cancer cells
    • Rauch,T., Li,H., Wu,X. and Pfeifer,G.P. (2006) MIRA-assisted microarray analysis, a new technology for the determination of DNA methylation patterns, identifies frequent methylation of homeodomain-containing genes in lung cancer cells. Cancer Res., 66, 7939-7947.
    • (2006) Cancer Res , vol.66 , pp. 7939-7947
    • Rauch, T.1    Li, H.2    Wu, X.3    Pfeifer, G.P.4
  • 7
  • 9
    • 3042701155 scopus 로고    scopus 로고
    • Epigenomics: Beyond CpG islands
    • Fazzari,M.J. and Greally,J.M. (2004) Epigenomics: Beyond CpG islands. Nat. Rev. Genet., 5, 446-455.
    • (2004) Nat. Rev. Genet , vol.5 , pp. 446-455
    • Fazzari, M.J.1    Greally, J.M.2
  • 10
    • 0019875880 scopus 로고
    • Methylation of CpG sequences in eukaryotic DNA
    • Gruenbaum,Y., Stein,R., Cedar,H. and Razin,A. (1981) Methylation of CpG sequences in eukaryotic DNA. FEBS Lett., 124, 67-71.
    • (1981) FEBS Lett , vol.124 , pp. 67-71
    • Gruenbaum, Y.1    Stein, R.2    Cedar, H.3    Razin, A.4
  • 11
    • 0020445155 scopus 로고
    • Characterization of DNA methylation in the rat
    • Kunnath,L. and Locker,J. (1982) Characterization of DNA methylation in the rat. Biochim. Biophys. Acta, 699, 264-271.
    • (1982) Biochim. Biophys. Acta , vol.699 , pp. 264-271
    • Kunnath, L.1    Locker, J.2
  • 12
    • 0030840954 scopus 로고    scopus 로고
    • Cytosine methylation and the ecology of intragenomic parasites
    • Yoder,J.A., Walsh,C.P. and Bestor,T.H. (1997) Cytosine methylation and the ecology of intragenomic parasites. Trends Genet., 13, 335-340.
    • (1997) Trends Genet , vol.13 , pp. 335-340
    • Yoder, J.A.1    Walsh, C.P.2    Bestor, T.H.3
  • 14
    • 33751544398 scopus 로고    scopus 로고
    • Large-scale production of embryonic red blood cells from human embryonic stem cells
    • Olivier,E.N., Qiu,C., Velho,M., Hirsch,R.E. and Bouhassira,E.E. (2006) Large-scale production of embryonic red blood cells from human embryonic stem cells. Exp. Hematol., 34, 1635-1642.
    • (2006) Exp. Hematol , vol.34 , pp. 1635-1642
    • Olivier, E.N.1    Qiu, C.2    Velho, M.3    Hirsch, R.E.4    Bouhassira, E.E.5
  • 15
    • 0030883816 scopus 로고    scopus 로고
    • Betaine improves the PCR amplification of GC-rich DNA sequences
    • Henke,W., Herdel,K., Jung,K., Schnorr,D. and Loening,S.A. (1997) Betaine improves the PCR amplification of GC-rich DNA sequences. Nucleic Acids Res., 25, 3957-3958.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3957-3958
    • Henke, W.1    Herdel, K.2    Jung, K.3    Schnorr, D.4    Loening, S.A.5
  • 16
    • 34250305146 scopus 로고    scopus 로고
    • Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
    • ENCODE consortium
    • ENCODE consortium. (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447, 799-816.
    • (2007) Nature , vol.447 , pp. 799-816
  • 19
    • 3543105225 scopus 로고    scopus 로고
    • Circular binary segmentation for the analysis of array-based DNA copy number data
    • Olshen,A.B., Venkatraman,E.S., Lucito,R. and Wigler,M. (2004) Circular binary segmentation for the analysis of array-based DNA copy number data. Biostatistics, 5, 557-572.
    • (2004) Biostatistics , vol.5 , pp. 557-572
    • Olshen, A.B.1    Venkatraman, E.S.2    Lucito, R.3    Wigler, M.4
  • 20
    • 34250182087 scopus 로고    scopus 로고
    • Normalization of two-channel microarrays accounting for experimental design and intensity-dependent relationships
    • Dabney,A.R. and Storey,J.D. (2007) Normalization of two-channel microarrays accounting for experimental design and intensity-dependent relationships. Genome Biol., 8, R44.
    • (2007) Genome Biol , vol.8
    • Dabney, A.R.1    Storey, J.D.2
  • 22
    • 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. Nature Rev. Genet., 9, 465-476.
    • (2008) Nature Rev. Genet , vol.9 , pp. 465-476
    • Suzuki, M.M.1    Bird, A.2
  • 23
    • 10744231187 scopus 로고    scopus 로고
    • Representational oligonucleotide microarray analysis: A high-resolution method to detect genome copy number variation
    • Lucito,R., Healy,J., Alexander,J., Reiner,A., Esposito,D., Chi,M., Rodgers,L., Brady,A., Sebat,J., Troge,J. et al. (2003) Representational oligonucleotide microarray analysis: A high-resolution method to detect genome copy number variation. Genome Res., 13 2291-2305.
    • (2003) Genome Res , vol.13 , pp. 2291-2305
    • Lucito, R.1    Healy, J.2    Alexander, J.3    Reiner, A.4    Esposito, D.5    Chi, M.6    Rodgers, L.7    Brady, A.8    Sebat, J.9    Troge, J.10
  • 25
    • 12144286180 scopus 로고    scopus 로고
    • Parallel genotyping of over 10,000 SNPs using a one-primer assay on a high-density oligonucleotide array
    • Matsuzaki,H., Loi,H., Dong,S., Tsai,Y.Y., Fang,J., Law,J., Di,X., Liu,W.M., Yang,G., Liu,G. et al. (2004) Parallel genotyping of over 10,000 SNPs using a one-primer assay on a high-density oligonucleotide array. Genome Res., 14, 414-425.
    • (2004) Genome Res , vol.14 , pp. 414-425
    • Matsuzaki, H.1    Loi, H.2    Dong, S.3    Tsai, Y.Y.4    Fang, J.5    Law, J.6    Di, X.7    Liu, W.M.8    Yang, G.9    Liu, G.10
  • 26
    • 0035577862 scopus 로고    scopus 로고
    • Dissecting complex epigenetic alterations in breast cancer using CpG island microarrays
    • Yan,P.S., Chen,C.M., Shi,H., Rahmatpanah,F., Wei,S.H., Caldwell,C.W. and Huang,T.H. (2001) Dissecting complex epigenetic alterations in breast cancer using CpG island microarrays. Cancer Res., 61, 8375-8380.
    • (2001) Cancer Res , vol.61 , pp. 8375-8380
    • Yan, P.S.1    Chen, C.M.2    Shi, H.3    Rahmatpanah, F.4    Wei, S.H.5    Caldwell, C.W.6    Huang, T.H.7
  • 28
    • 33645737308 scopus 로고    scopus 로고
    • A single nucleotide polymorphism chip-based method for combined genetic and epigenetic profiling: Validation in decitabine therapy and tumor/normal comparisons
    • Yuan,E., Haghighi,F., White,S., Costa,R., McMinn,J., Chun,K., Minden,M. and Tycko,B. (2006) A single nucleotide polymorphism chip-based method for combined genetic and epigenetic profiling: Validation in decitabine therapy and tumor/normal comparisons. Cancer Res., 66, 3443-3451.
    • (2006) Cancer Res , vol.66 , pp. 3443-3451
    • Yuan, E.1    Haghighi, F.2    White, S.3    Costa, R.4    McMinn, J.5    Chun, K.6    Minden, M.7    Tycko, B.8
  • 29
    • 0036274359 scopus 로고    scopus 로고
    • The fundamental role of epigenetic events in cancer
    • Jones,P.A. and Baylin,S.B. (2002) The fundamental role of epigenetic events in cancer. Nat. Rev. Genet., 3, 415-428.
    • (2002) Nat. Rev. Genet , vol.3 , pp. 415-428
    • Jones, P.A.1    Baylin, S.B.2
  • 30
    • 0033035955 scopus 로고    scopus 로고
    • Genomic changes defining the genesis, progression, and malignancy potential in solid human tumors: A phenotype/genotype correlation
    • Ried,T., Heselmeyer-Haddad,K., Blegen,H., Schrock,E. and Auer,G. (1999) Genomic changes defining the genesis, progression, and malignancy potential in solid human tumors: A phenotype/genotype correlation. Genes Chromosomes Cancer, 25, 195-204.
    • (1999) Genes Chromosomes Cancer , vol.25 , pp. 195-204
    • Ried, T.1    Heselmeyer-Haddad, K.2    Blegen, H.3    Schrock, E.4    Auer, G.5
  • 31
    • 49649125042 scopus 로고    scopus 로고
    • Meissner,A., Mikkelsen,T.S., Gu,H., Wernig,M., Hanna,J., Sivachenko,A., Zhang,X., Bernstein,B.E., Nusbaum,C., Ja.e,D.B. et al. (2008) Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature, 454, 766-770.
    • Meissner,A., Mikkelsen,T.S., Gu,H., Wernig,M., Hanna,J., Sivachenko,A., Zhang,X., Bernstein,B.E., Nusbaum,C., Ja.e,D.B. et al. (2008) Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature, 454, 766-770.
  • 32
    • 23744484912 scopus 로고    scopus 로고
    • Profiling DNA methylation patterns using genomic tiling microarrays
    • Lippman,Z., Gendrel,A.V., Colot,V. and Martienssen,R. (2005) Profiling DNA methylation patterns using genomic tiling microarrays. Nat. Methods, 2, 219-224.
    • (2005) Nat. Methods , vol.2 , pp. 219-224
    • Lippman, Z.1    Gendrel, A.V.2    Colot, V.3    Martienssen, R.4
  • 34
    • 65549107163 scopus 로고    scopus 로고
    • Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver
    • available online, in press
    • Brunner,A.L., Johnson,D.S., Kim,S.W., Valouev,A., Reddy,T.E., Neff,N.F., Anton,E., Medina,C., Nguyen,L., Chiao,E. et al. (2009) Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver. Genome Res. (in press, available online)
    • (2009) Genome Res
    • Brunner, A.L.1    Johnson, D.S.2    Kim, S.W.3    Valouev, A.4    Reddy, T.E.5    Neff, N.F.6    Anton, E.7    Medina, C.8    Nguyen, L.9    Chiao, E.10


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.