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Volumn 35, Issue 2, 2003, Pages 346-357

Epigenomic profiling using microarrays

Author keywords

[No Author keywords available]

Indexed keywords

ALKYLATION; DNA; HISTOLOGY; PROTEINS;

EID: 0042736137     PISSN: 07366205     EISSN: None     Source Type: Journal    
DOI: 10.2144/03352rv01     Document Type: Review
Times cited : (55)

References (63)
  • 2
    • 0030669030 scopus 로고    scopus 로고
    • Exploring the metabolic and genetic control of gene expression on a genomic scale
    • DeRisi, J.L., V. Iyer, and P.O. Brown. 1997. Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278:680-686.
    • (1997) Science , vol.278 , pp. 680-686
    • DeRisi, J.L.1    Iyer, V.2    Brown, P.O.3
  • 3
    • 0031201685 scopus 로고    scopus 로고
    • Exploring and explaining epigenetic effects
    • Henikoff, S. and M.A. Matzke. 1997. Exploring and explaining epigenetic effects. Trends Genet. 13:293-295.
    • (1997) Trends Genet. , vol.13 , pp. 293-295
    • Henikoff, S.1    Matzke, M.A.2
  • 4
    • 0042572938 scopus 로고    scopus 로고
    • Transgenerational epigenetic inheritance
    • Rakyan, V. and E. Whitelaw. 2003. Transgenerational epigenetic inheritance. Curr. Biol. 13:R6.
    • (2003) Curr. Biol. , vol.13
    • Rakyan, V.1    Whitelaw, E.2
  • 5
    • 0035933336 scopus 로고    scopus 로고
    • The activity of the murine DNA methyltransferase Dnmt1 is controlled by interaction of the catalytic domain with the N-terminal part of the enzyme leading to an allosteric activation of the enzyme after binding to methylated DNA
    • Fatemi, M., A. Hermann, S. Pradhan, and A. Jeltsch. 2001. The activity of the murine DNA methyltransferase Dnmt1 is controlled by interaction of the catalytic domain with the N-terminal part of the enzyme leading to an allosteric activation of the enzyme after binding to methylated DNA. J. Mol. Biol. 309:1189-1199.
    • (2001) J. Mol. Biol. , vol.309 , pp. 1189-1199
    • Fatemi, M.1    Hermann, A.2    Pradhan, S.3    Jeltsch, A.4
  • 6
    • 0026439115 scopus 로고
    • A targeting sequence directs DNA methyltransferase to sites of DNA replication in mammalian nuclei
    • Leonhardt, H., A.W. Page, H.U. Weier, and T.H. Bestor. 1992. A targeting sequence directs DNA methyltransferase to sites of DNA replication in mammalian nuclei. Cell 71:865-873.
    • (1992) Cell , vol.71 , pp. 865-873
    • Leonhardt, H.1    Page, A.W.2    Weier, H.U.3    Bestor, T.H.4
  • 7
    • 0036850325 scopus 로고    scopus 로고
    • Cellular memory and the histone code
    • Turner, B.M. 2002. Cellular memory and the histone code. Cell 111:285-291.
    • (2002) Cell , vol.111 , pp. 285-291
    • Turner, B.M.1
  • 8
    • 0036849262 scopus 로고    scopus 로고
    • Epigenetic consequences of nucleosome dynamics
    • Ahmad, K. and S. Henikoff. 2002. Epigenetic consequences of nucleosome dynamics. Cell 111:281-284.
    • (2002) Cell , vol.111 , pp. 281-284
    • Ahmad, K.1    Henikoff, S.2
  • 9
    • 0036144048 scopus 로고    scopus 로고
    • 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
  • 10
    • 0037041422 scopus 로고    scopus 로고
    • Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase
    • Jackson, J.P., A.M. Lindroth, X. Cao, and S.E. Jacobsen. 2002. Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase. Nature 416:556-560.
    • (2002) Nature , vol.416 , pp. 556-560
    • Jackson, J.P.1    Lindroth, A.M.2    Cao, X.3    Jacobsen, S.E.4
  • 11
    • 0035891265 scopus 로고    scopus 로고
    • A histone H3 methyltransferase controls DNA methylation in Neurospora crassa
    • Tamaru, H. and E.U. Selker. 2001. A histone H3 methyltransferase controls DNA methylation in Neurospora crassa. Nature 414:277-283.
    • (2001) Nature , vol.414 , pp. 277-283
    • Tamaru, H.1    Selker, E.U.2
  • 12
    • 0027537710 scopus 로고
    • Dynamic methylation of alfalfa histone H3
    • Waterborg, J.H. 1993. Dynamic methylation of alfalfa histone H3. J. Biol. Chem. 268:4918-4921.
    • (1993) J. Biol. Chem. , vol.268 , pp. 4918-4921
    • Waterborg, J.H.1
  • 13
    • 0037474126 scopus 로고    scopus 로고
    • ARGONAUTE4 controls of locus-specific siRNA accumulation and DNA and histone methylation
    • Zilberman, D., X. Cao, and S.E. Jacobsen. 2003. ARGONAUTE4 controls of locus-specific siRNA accumulation and DNA and histone methylation. Science 299:716-719.
    • (2003) Science , vol.299 , pp. 716-719
    • Zilberman, D.1    Cao, X.2    Jacobsen, S.E.3
  • 15
    • 0031707751 scopus 로고    scopus 로고
    • Alteration of nucleosome structure as a mechanism of transcriptional regulation
    • Workman, J.L. and R.E. Kingston. 1998. Alteration of nucleosome structure as a mechanism of transcriptional regulation. Ann. Rev. Biochem. 67:545-579.
    • (1998) Ann. Rev. Biochem. , vol.67 , pp. 545-579
    • Workman, J.L.1    Kingston, R.E.2
  • 16
    • 0035945567 scopus 로고    scopus 로고
    • Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF
    • Iyer, V.R., C.E. Horak, C.S. Scafe, D. Botstein, M. Snyder, and P.O. Brown. 2001. Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 409:533-538.
    • (2001) Nature , vol.409 , pp. 533-538
    • Iyer, V.R.1    Horak, C.E.2    Scafe, C.S.3    Botstein, D.4    Snyder, M.5    Brown, P.O.6
  • 18
    • 0035093828 scopus 로고    scopus 로고
    • Chromatin profiling using targeted DNA adenine methyltransferase
    • van Steensel, B., J. Delrow, and S. Henikoff. 2001. Chromatin profiling using targeted DNA adenine methyltransferase. Nat. Genet. 27:304-308.
    • (2001) Nat. Genet. , vol.27 , pp. 304-308
    • Van Steensel, B.1    Delrow, J.2    Henikoff, S.3
  • 19
    • 0035577862 scopus 로고    scopus 로고
    • Dissecting complex epigenetic alterations in breast cancer using CpG island microarrays
    • Yan, P.S., C.M. Chen, H. Shi, F. Rahmatpanah, S.H. Wei, C.W. Caldwell, and T.H. Huang. 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
  • 23
    • 0030724420 scopus 로고    scopus 로고
    • From expressed sequence tags to "epigenomics": An understanding of disease processes
    • Zweiger, G. and R.W. Scott. 1997. From expressed sequence tags to "epigenomics": an understanding of disease processes. Curr. Opin. Biotechnol. 8:684-687.
    • (1997) Curr. Opin. Biotechnol. , vol.8 , pp. 684-687
    • Zweiger, G.1    Scott, R.W.2
  • 25
    • 0036649756 scopus 로고    scopus 로고
    • Genome-wide binding map of the histone deacetylase Rpd3 in yeast
    • Kurdistani, S.K., D. Robyr, S. Tavazoie, and M. Grunstein. 2002. Genome-wide binding map of the histone deacetylase Rpd3 in yeast. Nat. Genet. 31:248-254.
    • (2002) Nat. Genet. , vol.31 , pp. 248-254
    • Kurdistani, S.K.1    Robyr, D.2    Tavazoie, S.3    Grunstein, M.4
  • 26
    • 0036798927 scopus 로고    scopus 로고
    • Cancer epigenomics
    • Plass, C. 2002. Cancer epigenomics. Hum. Mol. Genet. 11:2479-2488.
    • (2002) Hum. Mol. Genet. , vol.11 , pp. 2479-2488
    • Plass, C.1
  • 27
    • 0035313401 scopus 로고    scopus 로고
    • DNA methylation learns to fly
    • Lyko, F. 2001. DNA methylation learns to fly. Trends Genet. 17:169-172.
    • (2001) Trends Genet. , vol.17 , pp. 169-172
    • Lyko, F.1
  • 29
    • 0032168678 scopus 로고    scopus 로고
    • CpG methylation, chromatin structure and gene silencing - A three-way connection
    • Razin, A. 1998. CpG methylation, chromatin structure and gene silencing - a three-way connection. EMBO J. 17:4905-4908.
    • (1998) EMBO J. , vol.17 , pp. 4905-4908
    • Razin, A.1
  • 30
    • 0037423186 scopus 로고    scopus 로고
    • The methyl-CpG-binding protein MeCP2 links DNA methylation to histone methylation
    • Fuks, F., P.J. Hurd, D. Wolf, X. Nan, A.P. Bird, and T. Kouzarides. 2002. The methyl-CpG-binding protein MeCP2 links DNA methylation to histone methylation. J. Biol. Chem. 278:4035-4040.
    • (2002) 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
  • 31
    • 0033753779 scopus 로고    scopus 로고
    • The DNA methyltransferases of mammals
    • Bestor, T.H. 2000. The DNA methyltransferases of mammals. Hum. Mol. Genet. 9:2395-2402.
    • (2000) Hum. Mol. Genet. , vol.9 , pp. 2395-2402
    • Bestor, T.H.1
  • 32
    • 0036274359 scopus 로고    scopus 로고
    • The fundamental role of epigenetic events in cancer
    • Jones, P.A. and S.B. Baylin. 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
  • 33
    • 0036753290 scopus 로고    scopus 로고
    • DNA methylation: A profile of methods and applications
    • Fraga, M.F. and M. Esteller. 2002. DNA methylation: A profile of methods and applications. BioTechniques 33:632-649.
    • (2002) BioTechniques , vol.33 , pp. 632-649
    • Fraga, M.F.1    Esteller, M.2
  • 35
    • 0033563165 scopus 로고    scopus 로고
    • Identification of differentially methylated sequences in colorectal cancer by methylated CpG island amplification
    • Toyota, M., C. Ho, N. Ahuja, K.W. Jair, Q. Li, M. Ohe-Toyota, S.B. Baylin, and J.P. Issa. 1999. Identification of differentially methylated sequences in colorectal cancer by methylated CpG island amplification. Cancer Res. 59:2307-2312.
    • (1999) Cancer Res. , vol.59 , pp. 2307-2312
    • Toyota, M.1    Ho, C.2    Ahuja, N.3    Jair, K.W.4    Li, Q.5    Ohe-Toyota, M.6    Baylin, S.B.7    Issa, J.P.8
  • 36
    • 0037161917 scopus 로고    scopus 로고
    • A comprehensive catalog of CpG islands methylated in human lung adenocarcinomas for the identification of tumor suppressor genes
    • Shiraishi, M., A. Sekiguchi, M.J. Terry, A.J. Oates, Y. Miyamoto, Y.H. Chuu, M. Munakata, and T. Sekiya. 2002. A comprehensive catalog of CpG islands methylated in human lung adenocarcinomas for the identification of tumor suppressor genes. Oncogene 21:3804-3813.
    • (2002) Oncogene , vol.21 , pp. 3804-3813
    • Shiraishi, M.1    Sekiguchi, A.2    Terry, M.J.3    Oates, A.J.4    Miyamoto, Y.5    Chuu, Y.H.6    Munakata, M.7    Sekiya, T.8
  • 37
    • 0035992386 scopus 로고    scopus 로고
    • Methylation microarray analysis of late-stage ovarian carcinomas distinguishes progression-free survival in patients and identifies candidate epigenetic markers
    • Wei, S.H., C.M. Chen, G. Strathdee, J. Harnsomburana, C.R. Shyu, F. Rahmatpanah, H. Shi, S.W. Ng, et al. 2002. Methylation microarray analysis of late-stage ovarian carcinomas distinguishes progression-free survival in patients and identifies candidate epigenetic markers. Clin. Cancer Res. 8:2246-2252.
    • (2002) Clin. Cancer Res. , vol.8 , pp. 2246-2252
    • Wei, S.H.1    Chen, C.M.2    Strathdee, G.3    Harnsomburana, J.4    Shyu, C.R.5    Rahmatpanah, F.6    Shi, H.7    Ng, S.W.8
  • 39
    • 0036144883 scopus 로고    scopus 로고
    • Methylation-specific oligonucleotide microarray: A new potential for high-throughput methylation analysis
    • Gitan, R.S., H. Shi, C.M. Chen, P.S. Yan, and T.H. Huang. 2002. Methylation-specific oligonucleotide microarray: a new potential for high-throughput methylation analysis. Genome Res. 12:158-164.
    • (2002) Genome Res. , vol.12 , pp. 158-164
    • Gitan, R.S.1    Shi, H.2    Chen, C.M.3    Yan, P.S.4    Huang, T.H.5
  • 41
    • 0036591890 scopus 로고    scopus 로고
    • Replication timing and transcriptional control: Beyond cause and effect
    • Gilbert, D.M. 2002. Replication timing and transcriptional control: beyond cause and effect. Curr. Opin. Cell Biol. 14:377-383.
    • (2002) Curr. Opin. Cell Biol. , vol.14 , pp. 377-383
    • Gilbert, D.M.1
  • 43
    • 0036842221 scopus 로고    scopus 로고
    • Genome-wide DNA replication profile for Drosophila melanogaster: A link between transcription and replication timing
    • Schübeler, D., D. Scalzo, C. Kooperberg, B. van Steensel, J. Delrow, and M. Groudine. 2002. Genome-wide DNA replication profile for Drosophila melanogaster: a link between transcription and replication timing. Nat. Genet. 32:438-442.
    • (2002) Nat. Genet. , vol.32 , pp. 438-442
    • Schübeler, D.1    Scalzo, D.2    Kooperberg, C.3    Van Steensel, B.4    Delrow, J.5    Groudine, M.6
  • 44
    • 0034161329 scopus 로고    scopus 로고
    • Mapping chromosomal proteins in vivo by formaldehyde-crosslinked-chromatin immunoprecipitation
    • Orlando, V. 2000. Mapping chromosomal proteins in vivo by formaldehyde-crosslinked-chromatin immunoprecipitation. Trends Biochem. Sci. 25:99-104.
    • (2000) Trends Biochem. Sci. , vol.25 , pp. 99-104
    • Orlando, V.1
  • 45
    • 0001473216 scopus 로고
    • Formaldehyde-mediated DNA-protein crosslinking: A probe for in vivo chromatin structures
    • Solomon, M.J. and A. Varshavsky. 1985. Formaldehyde-mediated DNA-protein crosslinking: a probe for in vivo chromatin structures. Proc. Natl. Acad. Sci. USA 82:6470-6474.
    • (1985) Proc. Natl. Acad. Sci. USA , vol.82 , pp. 6470-6474
    • Solomon, M.J.1    Varshavsky, A.2
  • 46
    • 0034934774 scopus 로고    scopus 로고
    • Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association
    • Lieb, J.D., X. Liu, D. Botstein, and P.O. Brown. 2001. Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association. Nat. Genet. 28:327-334,
    • (2001) Nat. Genet. , vol.28 , pp. 327-334
    • Lieb, J.D.1    Liu, X.2    Botstein, D.3    Brown, P.O.4
  • 48
    • 0037080674 scopus 로고    scopus 로고
    • Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis
    • Weinmann, A.S., P.S. Yan, M.J. Oberley, T.H. Huang, and P.J. Farnham. 2002. Isolating human transcription factor targets by coupling chromatin immunoprecipitation and CpG island microarray analysis. Genes Dev. 16:235-244.
    • (2002) Genes Dev. , vol.16 , pp. 235-244
    • Weinmann, A.S.1    Yan, P.S.2    Oberley, M.J.3    Huang, T.H.4    Farnham, P.J.5
  • 49
    • 0037123767 scopus 로고    scopus 로고
    • Microarray deacetylation maps determine genome-wide functions for yeast histone deacetylases
    • Robyr, D., Y. Suka, I. Xenarios, S.K. Kurdistani, A. Wang, N. Suka, and M. Grunstein. 2002. Microarray deacetylation maps determine genome-wide functions for yeast histone deacetylases. Cell 109:437-446.
    • (2002) Cell , vol.109 , pp. 437-446
    • Robyr, D.1    Suka, Y.2    Xenarios, I.3    Kurdistani, S.K.4    Wang, A.5    Suka, N.6    Grunstein, M.7
  • 50
    • 0037435010 scopus 로고    scopus 로고
    • Identification of novel pRb binding sites using CpG microarrays suggests that E2F recruits pRb to specific genomic sites during S phase
    • Wells, J., P.S. Yan, M. Cechvala, T. Huang, and P.J. Farnham. 2003. Identification of novel pRb binding sites using CpG microarrays suggests that E2F recruits pRb to specific genomic sites during S phase. Oncogene 22:1445-1460.
    • (2003) Oncogene , vol.22 , pp. 1445-1460
    • Wells, J.1    Yan, P.S.2    Cechvala, M.3    Huang, T.4    Farnham, P.J.5
  • 51
    • 0037080483 scopus 로고    scopus 로고
    • E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints
    • Ren, B., H. Cam, Y. Takahashi, T. Volkert, J. Terragni, R.A. Young, and B.D. Dynlacht. 2002. E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints. Genes Dev. 16:245-256.
    • (2002) Genes Dev. , vol.16 , pp. 245-256
    • Ren, B.1    Cam, H.2    Takahashi, Y.3    Volkert, T.4    Terragni, J.5    Young, R.A.6    Dynlacht, B.D.7
  • 52
    • 0034007256 scopus 로고    scopus 로고
    • Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase
    • van Steensel, B. and S. Henikoff. 2000. Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase. Nat. Biotechnol. 18:424-428.
    • (2000) Nat. Biotechnol. , vol.18 , pp. 424-428
    • Van Steensel, B.1    Henikoff, S.2
  • 53
    • 0024554174 scopus 로고
    • The great GATC: DNA methylation in E. coli
    • Barras, F. and M.G. Marinus. 1989. The great GATC: DNA methylation in E. coli. Trends Genet. 5:139-143.
    • (1989) Trends Genet. , vol.5 , pp. 139-143
    • Barras, F.1    Marinus, M.G.2
  • 54
    • 0026591791 scopus 로고
    • Active genes in budding yeast display enhanced in vivo accessibility to foreign DNA methylases: A novel in vivo probe for chromatin structure of yeast
    • Singh, J. and A.J. Klar. 1992. Active genes in budding yeast display enhanced in vivo accessibility to foreign DNA methylases: a novel in vivo probe for chromatin structure of yeast. Genes Dev. 6:186-196.
    • (1992) Genes Dev. , vol.6 , pp. 186-196
    • Singh, J.1    Klar, A.J.2
  • 55
    • 0031731777 scopus 로고    scopus 로고
    • In vivo chromatin accessibility correlates with gene silencing in Drosophila
    • Boivin, A. and J.M. Dura. 1998. In vivo chromatin accessibility correlates with gene silencing in Drosophila. Genetics 150:1539-1549.
    • (1998) Genetics , vol.150 , pp. 1539-1549
    • Boivin, A.1    Dura, J.M.2
  • 56
    • 0030043038 scopus 로고    scopus 로고
    • Introduction of a DNA methyltransferase into Drosophila to probe chromatin structure in vivo
    • Wines, D.R., P.B. Talbert, D.V. Clark, and S. Henikoff. 1996. Introduction of a DNA methyltransferase into Drosophila to probe chromatin structure in vivo. Chromosoma 104:332-340.
    • (1996) Chromosoma , vol.104 , pp. 332-340
    • Wines, D.R.1    Talbert, P.B.2    Clark, D.V.3    Henikoff, S.4
  • 57
    • 0037372878 scopus 로고    scopus 로고
    • A methyltransferase targeting assay reveals silencer-telomere interactions in budding yeast
    • Lebrun, E., G. Fourel, P.A. Defossez, and E. Gilson. 2003. A methyltransferase targeting assay reveals silencer-telomere interactions in budding yeast. Mol. Cell Biol. 23:1498-1508.
    • (2003) Mol. Cell Biol. , vol.23 , pp. 1498-1508
    • Lebrun, E.1    Fourel, G.2    Defossez, P.A.3    Gilson, E.4
  • 59
    • 0035793376 scopus 로고    scopus 로고
    • Protein dynamics: Implications for nuclear architecture and gene expression
    • Misteli, T. 2001. Protein dynamics: implications for nuclear architecture and gene expression. Science 291:843-847.
    • (2001) Science , vol.291 , pp. 843-847
    • Misteli, T.1
  • 60
    • 0036300777 scopus 로고    scopus 로고
    • The Escherichia coli dam DNA methyltransferase modifies DNA in a highly processive reaction
    • Urig, S., H. Gowher, A. Hermann, C. Beck, M. Fatemi, A. Humeny, and A. Jeltsch. 2002. The Escherichia coli dam DNA methyltransferase modifies DNA in a highly processive reaction. J. Mol. Biol. 319:1085-1096.
    • (2002) J. Mol. Biol. , vol.319 , pp. 1085-1096
    • Urig, S.1    Gowher, H.2    Hermann, A.3    Beck, C.4    Fatemi, M.5    Humeny, A.6    Jeltsch, A.7
  • 61
    • 0037418234 scopus 로고    scopus 로고
    • Genomewide analysis of Drosophila GAGA factor target genes reveals context-dependent DNA binding
    • van Steensel, B., J. Delrow, and H.J. Bussemaker. 2003. Genomewide analysis of Drosophila GAGA factor target genes reveals context-dependent DNA binding. Proc. Natl. Acad. Sci. USA 100:2580-2585.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 2580-2585
    • Van Steensel, B.1    Delrow, J.2    Bussemaker, H.J.3
  • 63
    • 0037059081 scopus 로고    scopus 로고
    • Does heterochromatin protein 1 always follow code?
    • Li, Y., D.A. Kirschmann, and L.L. Wallrath. 2002. Does heterochromatin protein 1 always follow code? Proc. Natl. Acad. Sci. USA. 99(Suppl 4):16462-16469.
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , Issue.SUPPL. 4 , pp. 16462-16469
    • Li, Y.1    Kirschmann, D.A.2    Wallrath, L.L.3


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