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Volumn 106, Issue 2, 2012, Pages 248-253

Intragenic DNA methylation: Implications of this epigenetic mechanism for cancer research

Author keywords

breast cancer; DNA methylation; epigenetics; gene body; intragenic

Indexed keywords

DNA;

EID: 84856474843     PISSN: 00070920     EISSN: 15321827     Source Type: Journal    
DOI: 10.1038/bjc.2011.550     Document Type: Review
Times cited : (157)

References (49)
  • 1
    • 33847292797 scopus 로고    scopus 로고
    • An unmethylated 30 promoter-proximal region is required for efficient transcription initiation
    • Appanah R, Dickerson DR, Goyal P, Groudine M, Lorincz MC (2007) An unmethylated 30 promoter-proximal region is required for efficient transcription initiation. PLoS Genet 3(2): e27
    • (2007) PLoS Genet , vol.3 , Issue.2
    • Appanah, R.1    Dickerson, D.R.2    Goyal, P.3    Groudine, M.4    Lorincz, M.C.5
  • 3
    • 78751693154 scopus 로고    scopus 로고
    • Replication timingrelated and gene body-specific methylation of active human genes
    • Aran D, Toperoff G, Rosenberg M, Hellman A (2011) Replication timingrelated and gene body-specific methylation of active human genes. Hum Mol Genet 20: 670-680
    • (2011) Hum Mol Genet , vol.20 , pp. 670-680
    • Aran, D.1    Toperoff, G.2    Rosenberg, M.3    Hellman, A.4
  • 5
    • 0022540321 scopus 로고
    • CpG-rich islands and the function of DNA methylation
    • Bird AP (1986) CpG-rich islands and the function of DNA methylation. Nature 321(6067): 209-213 (Pubitemid 16016411)
    • (1986) Nature , vol.321 , Issue.6067 , pp. 209-213
    • Bird, A.P.1
  • 7
    • 27744577727 scopus 로고    scopus 로고
    • Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription
    • DOI 10.1016/j.cell.2005.10.023, PII S0092867405011566
    • Carrozza MJ, Li B, Florens L, Suganuma T, Swanson SK, Lee KK, Shia WJ, Anderson S, Yates J, Washburn MP, Workman JL (2005) Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription. Cell 123: 581-592 (Pubitemid 41608462)
    • (2005) Cell , vol.123 , Issue.4 , pp. 581-592
    • Carrozza, M.J.1    Li, B.2    Florens, L.3    Suganuma, T.4    Swanson, S.K.5    Lee, K.K.6    Shia, W.-J.7    Anderson, S.8    Yates, J.9    Washburn, M.P.10    Workman, J.L.11
  • 8
    • 67349190247 scopus 로고    scopus 로고
    • Linking DNA methylation and histone modification: Patterns and paradigms
    • Cedar H, Bergman Y (2009) Linking DNA methylation and histone modification: patterns and paradigms. Nat Rev Genet 10(5): 295-304
    • (2009) Nat Rev Genet , vol.10 , Issue.5 , pp. 295-304
    • Cedar, H.1    Bergman, Y.2
  • 9
    • 77954171220 scopus 로고    scopus 로고
    • Contrasting chromatin organization of CpG islands and exons in the human genome
    • Choi JK (2010) Contrasting chromatin organization of CpG islands and exons in the human genome. Genome Biol 11(7): R70
    • (2010) Genome Biol , vol.11 , Issue.7
    • Choi, J.K.1
  • 10
    • 76249090741 scopus 로고    scopus 로고
    • Nucleosome deposition and DNA methylation at coding region boundaries
    • Choi JK, Bae JB, Lyu J, Kim TY, Kim YJ (2009) Nucleosome deposition and DNA methylation at coding region boundaries. Genome Biol 10(9): R89
    • (2009) Genome Biol , vol.10 , Issue.9
    • Choi, J.K.1    Bae, J.B.2    Lyu, J.3    Kim, T.Y.4    Kim, Y.J.5
  • 11
    • 34250661469 scopus 로고    scopus 로고
    • DNA demethylating agents and histone deacetylase inhibitors in hematologic malignancies
    • Fandy TE, Carraway H, Gore SD (2007) DNA demethylating agents and histone deacetylase inhibitors in hematologic malignancies. Cancer J 13: 40-48
    • (2007) Cancer J , vol.13 , pp. 40-48
    • Fandy, T.E.1    Carraway, H.2    Gore, S.D.3
  • 13
    • 84856409466 scopus 로고    scopus 로고
    • DNA methylation profiling to identify known and novel tumour subtypes
    • Watanabe HS (ed) Chapter II. Nova Science Publishers: New York
    • Flanagan JM (2011) DNA methylation profiling to identify known and novel tumour subtypes. In Horizons in Cancer Research, Watanabe HS (ed) Vol. 46, Chapter II. Nova Science Publishers: New York
    • (2011) Horizons in Cancer Research , vol.1 , pp. 46
    • Flanagan, J.M.1
  • 15
    • 77949722647 scopus 로고    scopus 로고
    • Evaluation of a prediction protocol to identify potential targets of epigenetic reprogramming by the cancer associated Epstein Barr virus
    • Flower K, Hellen E, Newport MJ, Jones S, Sinclair AJ (2010) Evaluation of a prediction protocol to identify potential targets of epigenetic reprogramming by the cancer associated Epstein Barr virus. PLoS One 5(2): e9443
    • (2010) PLoS One , vol.5 , Issue.2
    • Flower, K.1    Hellen, E.2    Newport, M.J.3    Jones, S.4    Sinclair, A.J.5
  • 18
    • 34447098370 scopus 로고    scopus 로고
    • A chromatin landmark and transcription initiation at most promoters in human cells
    • DOI 10.1016/j.cell.2007.05.042, PII S0092867407006812
    • Guenther MG, Levine SS, Boyer LA, Jaenisch R, Young RA (2007) A chromatin landmark and transcription initiation at most promoters in human cells. Cell 130: 77-88 (Pubitemid 47031323)
    • (2007) Cell , vol.130 , Issue.1 , pp. 77-88
    • Guenther, M.G.1    Levine, S.S.2    Boyer, L.A.3    Jaenisch, R.4    Young, R.A.5
  • 20
    • 79955400147 scopus 로고    scopus 로고
    • Relationship between gene body DNA methylation and intragenic H3K9me3 and H3K36me3 chromatin marks
    • Hahn MA, Wu X, Li AX, Hahn T, Pfeifer GP (2011) Relationship between gene body DNA methylation and intragenic H3K9me3 and H3K36me3 chromatin marks. PLoS One 6(4): e18844
    • (2011) PLoS One , vol.6 , Issue.4
    • Hahn, M.A.1    Wu, X.2    Li, A.X.3    Hahn, T.4    Pfeifer, G.P.5
  • 21
    • 80054880084 scopus 로고    scopus 로고
    • DNA methylation directly silences genes with non-CpG island promoters and establishes a nucleosome occupied promoter
    • Han H, Cortez CC, Yang X, Nichols PW, Jones PA, Liang G (2011) DNA methylation directly silences genes with non-CpG island promoters and establishes a nucleosome occupied promoter. Hum Mol Genet 20(22): 4299-4310
    • (2011) Hum Mol Genet , vol.20 , Issue.22 , pp. 4299-4310
    • Han, H.1    Cortez, C.C.2    Yang, X.3    Nichols, P.W.4    Jones, P.A.5    Liang, G.6
  • 23
    • 33847304609 scopus 로고    scopus 로고
    • Gene body-specific methylation on the active X chromosome
    • DOI 10.1126/science.1136352
    • Hellman A, Chess A (2007) Gene body-specific methylation on the active X chromosome. Science 315(5815): 1141-1143 (Pubitemid 46328027)
    • (2007) Science , vol.315 , Issue.5815 , pp. 1141-1143
    • Hellman, A.1    Chess, A.2
  • 25
    • 78649836342 scopus 로고    scopus 로고
    • Reciprocal intronic and exonic histone modification regions in humans
    • Huff JT, Plocik AM, Guthrie C, Yamamoto KR (2010) Reciprocal intronic and exonic histone modification regions in humans. Nat Struct Mol Biol 17: 1495-1499
    • (2010) Nat Struct Mol Biol , vol.17 , pp. 1495-1499
    • Huff, J.T.1    Plocik, A.M.2    Guthrie, C.3    Yamamoto, K.R.4
  • 26
    • 33847065486 scopus 로고    scopus 로고
    • The epigenomics of cancer
    • DOI 10.1016/j.cell.2007.01.029, PII S0092867407001274
    • Jones PA, Baylin SB (2007) The epigenomics of cancer. Cell 128(4): 683-692 (Pubitemid 46273572)
    • (2007) Cell , vol.128 , Issue.4 , pp. 683-692
    • Jones, P.A.1    Baylin, S.B.2
  • 27
    • 41649121741 scopus 로고    scopus 로고
    • Using ChIP-chip technology to reveal common principles of transcriptional repression in normal and cancer cells
    • DOI 10.1101/gr.074609.107
    • Komashko VM, Acevedo LG, Squazzo SL, Iyengar SS, Rabinovich A, O'Geen H, Green R, Farnham PJ (2008) Using ChIP-chip technology to reveal common principles of transcriptional repression in normal and cancer cells. Genome Res 18(4): 521-532 (Pubitemid 351482777)
    • (2008) Genome Research , vol.18 , Issue.4 , pp. 521-532
    • Komashko, V.M.1    Acevedo, L.G.2    Squazzo, S.L.3    Iyengar, S.S.4    Rabinovich, A.5    O'Geen, H.6    Green, R.7    Farnham, P.J.8
  • 28
    • 77954688477 scopus 로고    scopus 로고
    • 5-azacytidine treatment reorganizes genomic histone modification patterns
    • Komashko VM, Farnham PJ (2010) 5-azacytidine treatment reorganizes genomic histone modification patterns. Epigenetics 5(3): 229-240
    • (2010) Epigenetics , vol.5 , Issue.3 , pp. 229-240
    • Komashko, V.M.1    Farnham, P.J.2
  • 30
    • 29244490064 scopus 로고    scopus 로고
    • Control of transcription through intragenic patterns of nucleosome composition
    • DOI 10.1016/j.cell.2005.12.010, PII S0092867405013929
    • Lieb JD, Clarke ND (2005) Control of transcription through intragenic patterns of nucleosome composition. Cell 123: 1187-1190 (Pubitemid 41821777)
    • (2005) Cell , vol.123 , Issue.7 , pp. 1187-1190
    • Lieb, J.D.1    Clarke, N.D.2
  • 31
    • 7544231794 scopus 로고    scopus 로고
    • Intragenic DNA methylation alters chromatin structure and elongation efficiency in mammalian cells
    • DOI 10.1038/nsmb840
    • Lorincz M, Dickerson D, Schmitt M, Groudine M (2004) Intragenic DNA methylation alters chromatin structure and elongation efficiency in mammalian cells. Nat Struct Mol Biol 11(11): 1068-1075 (Pubitemid 39453335)
    • (2004) Nature Structural and Molecular Biology , vol.11 , Issue.11 , pp. 1068-1075
    • Lorincz, M.C.1    Dickerson, D.R.2    Schmitt, M.3    Groudine, M.4
  • 33
    • 80555125018 scopus 로고    scopus 로고
    • Comparative methylomics reveals gene-body H3K36me3 in Drosophila predicts DNA methylation and CpG landscapes in other invertebrates
    • Nanty L, Carbajosa G, Heap GA, Ratnieks F, van Heel DA, Down TA, Rakyan VK (2011) Comparative methylomics reveals gene-body H3K36me3 in Drosophila predicts DNA methylation and CpG landscapes in other invertebrates. Genome Res 21(11): 1841-1850
    • (2011) Genome Res , vol.21 , Issue.11 , pp. 1841-1850
    • Nanty, L.1    Carbajosa, G.2    Heap, G.A.3    Ratnieks, F.4    Van Heel, D.A.5    Down, T.A.6    Rakyan, V.K.7
  • 37
    • 84856448763 scopus 로고    scopus 로고
    • Eagles report: Developing cancer biomarkers from genome-wide DNA methylation analyses
    • Schulz WA, Goering W (2011) Eagles report: developing cancer biomarkers from genome-wide DNA methylation analyses. World J Clin Oncol 2(1): 1-7
    • (2011) World J Clin Oncol , vol.2 , Issue.1 , pp. 1-7
    • Schulz, W.A.1    Goering, W.2
  • 38
    • 68349125112 scopus 로고    scopus 로고
    • What controls nucleosome positions?
    • Segal E, Widom J (2009) What controls nucleosome positions? Trends Genet 25(8): 335-343
    • (2009) Trends Genet , vol.25 , Issue.8 , pp. 335-343
    • Segal, E.1    Widom, J.2
  • 39
    • 43149125426 scopus 로고    scopus 로고
    • Genome-wide mapping and characterization of hypomethylated sites in human tissues and breast cancer cell lines
    • DOI 10.1101/gr.070961.107
    • Shann YJ, Cheng C, Chiao CH, Chen DT, Li PH, Hsu MT (2008) Genomewide mapping and characterization of hypomethylated sites in human tissues and breast cancer cell lines. Genome Res 18: 791-801 (Pubitemid 351645069)
    • (2008) Genome Research , vol.18 , Issue.5 , pp. 791-801
    • Shann, Y.-J.1    Cheng, C.2    Chiao, C.-H.3    Chen, D.-T.4    Li, P.-H.5    Hsu, M.-T.6
  • 41
    • 43749098985 scopus 로고    scopus 로고
    • DNA methylation landscapes: Provocative insights from epigenomics
    • DOI 10.1038/nrg2341, PII NRG2341
    • Suzuki MM, Bird A (2008) DNA methylation landscapes: provocative insights from epigenomics. Nat Rev Genet 9: 465-476 (Pubitemid 351693975)
    • (2008) Nature Reviews Genetics , vol.9 , Issue.6 , pp. 465-476
    • Suzuki, M.M.1    Bird, A.2
  • 43
    • 0038581890 scopus 로고    scopus 로고
    • Transcription of antisense RNA leading to gene silencing and methylation as a novel cause of human genetic disease
    • DOI 10.1038/ng1157
    • Tufarelli C, Stanley JA, Garrick D, Sharpe JA, Ayyub H, Wood WG, Higgs DR (2003) Transcription of antisense RNA leading to gene silencing and methylation as a novel cause of human genetic disease. Nat Genet 34: 157-165 (Pubitemid 36666926)
    • (2003) Nature Genetics , vol.34 , Issue.2 , pp. 157-165
    • Tufarelli, C.1    Sloane Stanley, J.A.2    Garrick, D.3    Sharpe, J.A.4    Ayyub, H.5    Wood, W.G.6    Higgs, D.R.7
  • 44
    • 23044514626 scopus 로고    scopus 로고
    • Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells
    • DOI 10.1038/ng1598
    • Weber M, Davies JJ, Wittig D, Oakeley EJ, Haase M, Lam WL, 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 (Pubitemid 41077111)
    • (2005) Nature Genetics , vol.37 , Issue.8 , 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
  • 45
    • 77955700020 scopus 로고    scopus 로고
    • Genome-wide hypomethylation in cancer may be a passive consequence of transformation
    • Wild L, Flanagan JM (2010) Genome-wide hypomethylation in cancer may be a passive consequence of transformation. Biochim Biophys Acta 1806(1): 50-57
    • (2010) Biochim Biophys Acta , vol.1806 , Issue.1 , pp. 50-57
    • Wild, L.1    Flanagan, J.M.2
  • 46
    • 0030840954 scopus 로고    scopus 로고
    • Cytosine methylation and the ecology of intragenomic parasites
    • DOI 10.1016/S0168-9525(97)01181-5, PII S0168952597011815
    • Yoder JA, Walsh CP, Bestor TH (1997) Cytosine methylation and the ecology of intragenomic parasites. Trends Genet 13: 335-340 (Pubitemid 27309911)
    • (1997) Trends in Genetics , vol.13 , Issue.8 , pp. 335-340
    • Yoder, J.A.1    Walsh, C.P.2    Bestor, T.H.3
  • 47
    • 77952355762 scopus 로고    scopus 로고
    • Genome-wide evolutionary analysis of eukaryotic DNA methylation
    • Zemach A, McDaniel IE, Silva P, Zilberman D (2010) Genome-wide evolutionary analysis of eukaryotic DNA methylation. Science 328(5980): 916-919
    • (2010) Science , vol.328 , Issue.5980 , pp. 916-919
    • Zemach, A.1    McDaniel, I.E.2    Silva, P.3    Zilberman, D.4
  • 49
    • 33845880624 scopus 로고    scopus 로고
    • Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription
    • DOI 10.1038/ng1929, PII NG1929
    • Zilberman D, Gehring M, Tran RK, Ballinger T, Henikoff S (2007) Genomewide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription. Nature genetics 39(1): 61-69 (Pubitemid 46026502)
    • (2007) Nature Genetics , vol.39 , Issue.1 , pp. 61-69
    • Zilberman, D.1    Gehring, M.2    Tran, R.K.3    Ballinger, T.4    Henikoff, S.5


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