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Volumn 397, Issue 1, 2010, Pages 96-106

Comparison of bisulfite sequencing PCR with pyrosequencing for measuring differences in DNA methylation

Author keywords

ABCB1; Bisulfite sequencing PCR; DNA methylation; Drug resistance; Hypermethylation; Hypomethylation; Mixed methylation; Pyrosequencing

Indexed keywords

ALKYLATION; CELL CULTURE; CELL PROLIFERATION; CLONE CELLS; CLONING; DNA; GENE ENCODING; GENE EXPRESSION; METHYLATION;

EID: 71749102589     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2009.10.021     Document Type: Article
Times cited : (80)

References (30)
  • 2
    • 13844320649 scopus 로고    scopus 로고
    • Aberrant DNA methylation as a cancer-inducing mechanism
    • Esteller M. Aberrant DNA methylation as a cancer-inducing mechanism. Annu. Rev. Pharmacol. Toxicol. 45 (2005) 629-656
    • (2005) Annu. Rev. Pharmacol. Toxicol. , vol.45 , pp. 629-656
    • Esteller, M.1
  • 3
    • 24744453331 scopus 로고    scopus 로고
    • Methyl-CpG-binding proteins in cancer: blaming the DNA methylation messenger
    • Ballestar E., and Esteller M. Methyl-CpG-binding proteins in cancer: blaming the DNA methylation messenger. Biochem. Cell Biol. 83 (2005) 374-384
    • (2005) Biochem. Cell Biol. , vol.83 , pp. 374-384
    • Ballestar, E.1    Esteller, M.2
  • 6
    • 4444346815 scopus 로고    scopus 로고
    • De novo quantitative bisulfite sequencing using the pyrosequencing technology
    • Dupont J.M., Tost J., Jammes H., and Gut I.G. De novo quantitative bisulfite sequencing using the pyrosequencing technology. Anal. Biochem. 333 (2004) 119-127
    • (2004) Anal. Biochem. , vol.333 , pp. 119-127
    • Dupont, J.M.1    Tost, J.2    Jammes, H.3    Gut, I.G.4
  • 7
    • 38449113853 scopus 로고    scopus 로고
    • DNA methylation analysis by pyrosequencing
    • Tost J., and Gut I.G. DNA methylation analysis by pyrosequencing. Nat. Protoc. 2 (2007) 2265-2275
    • (2007) Nat. Protoc. , vol.2 , pp. 2265-2275
    • Tost, J.1    Gut, I.G.2
  • 8
    • 41149110952 scopus 로고    scopus 로고
    • The role of pyrosequencing in head and neck cancer epigenetics: correlation of quantitative methylation data with gene expression
    • Shaw R.J., Hall G.L., Lowe D., Liloglou T., Field J.K., Sloan P., and Risk J.M. The role of pyrosequencing in head and neck cancer epigenetics: correlation of quantitative methylation data with gene expression. Arch. Otolaryngol. Head Neck Surg. 134 (2008) 251-256
    • (2008) Arch. Otolaryngol. Head Neck Surg. , vol.134 , pp. 251-256
    • Shaw, R.J.1    Hall, G.L.2    Lowe, D.3    Liloglou, T.4    Field, J.K.5    Sloan, P.6    Risk, J.M.7
  • 9
    • 0038678777 scopus 로고    scopus 로고
    • Sensitive and quantitative universal pyrosequencing methylation analysis of CpG sites
    • Colella S., Shen L., Baggerly K.A., Issa J.P., and Krahe R. Sensitive and quantitative universal pyrosequencing methylation analysis of CpG sites. BioTechniques 35 (2003) 146-150
    • (2003) BioTechniques , vol.35 , pp. 146-150
    • Colella, S.1    Shen, L.2    Baggerly, K.A.3    Issa, J.P.4    Krahe, R.5
  • 10
    • 0038002236 scopus 로고    scopus 로고
    • Analysis and quantification of multiple methylation variable positions in CpG islands by pyrosequencing
    • Tost J., Dunker J., and Gut I.G. Analysis and quantification of multiple methylation variable positions in CpG islands by pyrosequencing. BioTechniques 35 (2003) 152-156
    • (2003) BioTechniques , vol.35 , pp. 152-156
    • Tost, J.1    Dunker, J.2    Gut, I.G.3
  • 11
    • 8444224421 scopus 로고    scopus 로고
    • MDR1 promoter hypermethylation in MCF-7 human breast cancer cells: changes in chromatin structure induced by treatment with 5-Aza-cytidine
    • David G.L., Yegnasubramanian S., Kumar A., Marchi V.L., De Marzo A.M., Lin X., and Nelson W.G. MDR1 promoter hypermethylation in MCF-7 human breast cancer cells: changes in chromatin structure induced by treatment with 5-Aza-cytidine. Cancer Biol. Ther. 3 (2004) 540-548
    • (2004) Cancer Biol. Ther. , vol.3 , pp. 540-548
    • David, G.L.1    Yegnasubramanian, S.2    Kumar, A.3    Marchi, V.L.4    De Marzo, A.M.5    Lin, X.6    Nelson, W.G.7
  • 12
    • 58149163378 scopus 로고    scopus 로고
    • Hypermethylation of the ABCB1 downstream gene promoter accompanies ABCB1 gene amplification and increased expression in docetaxel-resistant MCF-7 breast tumor cells
    • Reed K., Hembruff S.L., Laberge M.L., Villeneuve D.J., Cote G.B., and Parissenti A.M. Hypermethylation of the ABCB1 downstream gene promoter accompanies ABCB1 gene amplification and increased expression in docetaxel-resistant MCF-7 breast tumor cells. Epigenetics 3 (2008) 270-280
    • (2008) Epigenetics , vol.3 , pp. 270-280
    • Reed, K.1    Hembruff, S.L.2    Laberge, M.L.3    Villeneuve, D.J.4    Cote, G.B.5    Parissenti, A.M.6
  • 14
    • 0033564370 scopus 로고    scopus 로고
    • Association of 5′ CpG demethylation and altered chromatin structure in the promoter region with transcriptional activation of the multidrug resistance 1 gene in human cancer cells
    • Kusaba H., Nakayama M., Harada T., Nomoto M., Kohno K., Kuwano M., and Wada M. Association of 5′ CpG demethylation and altered chromatin structure in the promoter region with transcriptional activation of the multidrug resistance 1 gene in human cancer cells. Eur. J. Biochem. 262 (1999) 924-932
    • (1999) Eur. J. Biochem. , vol.262 , pp. 924-932
    • Kusaba, H.1    Nakayama, M.2    Harada, T.3    Nomoto, M.4    Kohno, K.5    Kuwano, M.6    Wada, M.7
  • 15
    • 0032403478 scopus 로고    scopus 로고
    • Hypomethylation status of CpG sites at the promoter region and overexpression of the human MDR1 gene in acute myeloid leukemias
    • Nakayama M., Wada M., Harada T., Nagayama J., Kusaba H., Ohshima K., Kozuru M., Komatsu H., Ueda R., and Kuwano M. Hypomethylation status of CpG sites at the promoter region and overexpression of the human MDR1 gene in acute myeloid leukemias. Blood 92 (1998) 4296-4307
    • (1998) Blood , vol.92 , pp. 4296-4307
    • Nakayama, M.1    Wada, M.2    Harada, T.3    Nagayama, J.4    Kusaba, H.5    Ohshima, K.6    Kozuru, M.7    Komatsu, H.8    Ueda, R.9    Kuwano, M.10
  • 16
    • 0031865310 scopus 로고    scopus 로고
    • Demethylation of the human MDR1 5' region accompanies activation of P-glycoprotein expression in a HL60 multidrug resistant subline
    • Desiderato L., Davey M.W., and Piper A.A. Demethylation of the human MDR1 5' region accompanies activation of P-glycoprotein expression in a HL60 multidrug resistant subline. Somat. Cell Mol. Genet. 23 (1997) 391-400
    • (1997) Somat. Cell Mol. Genet. , vol.23 , pp. 391-400
    • Desiderato, L.1    Davey, M.W.2    Piper, A.A.3
  • 19
    • 33847315195 scopus 로고    scopus 로고
    • Regulation of Cdx2 expression by promoter methylation, and effects of Cdx2 transfection on morphology and gene expression of human esophageal epithelial cells
    • Liu T., Zhang X., So C.K., Wang S., Wang P., Yan L., Myers R., Chen Z., Patterson A.P., Yang C.S., and Chen X. Regulation of Cdx2 expression by promoter methylation, and effects of Cdx2 transfection on morphology and gene expression of human esophageal epithelial cells. Carcinogenesis 28 (2007) 488-496
    • (2007) Carcinogenesis , vol.28 , pp. 488-496
    • Liu, T.1    Zhang, X.2    So, C.K.3    Wang, S.4    Wang, P.5    Yan, L.6    Myers, R.7    Chen, Z.8    Patterson, A.P.9    Yang, C.S.10    Chen, X.11
  • 20
    • 33846031979 scopus 로고    scopus 로고
    • Quantitative high-resolution CpG island mapping with pyrosequencing reveals disease-specific methylation patterns of the CDKN2B gene in myelodysplastic syndrome and myeloid leukemia
    • Brakensiek K., Wingen L.U., Langer F., Kreipe H., and Lehmann U. Quantitative high-resolution CpG island mapping with pyrosequencing reveals disease-specific methylation patterns of the CDKN2B gene in myelodysplastic syndrome and myeloid leukemia. Clin. Chem. 53 (2007) 17-23
    • (2007) Clin. Chem. , vol.53 , pp. 17-23
    • Brakensiek, K.1    Wingen, L.U.2    Langer, F.3    Kreipe, H.4    Lehmann, U.5
  • 21
    • 0027415446 scopus 로고
    • Mosaic methylation in clonal tissue
    • Silva A.J., Ward K., and White R. Mosaic methylation in clonal tissue. Dev. Biol. 156 (1993) 391-398
    • (1993) Dev. Biol. , vol.156 , pp. 391-398
    • Silva, A.J.1    Ward, K.2    White, R.3
  • 22
    • 0034162161 scopus 로고    scopus 로고
    • Symmetric and asymmetric DNA methylation in the human IGF2-H19 imprinted region
    • Vu T.H., Li T., Nguyen D., Nguyen B.T., Yao X.M., Hu J.F., and Hoffman A.R. Symmetric and asymmetric DNA methylation in the human IGF2-H19 imprinted region. Genomics 64 (2000) 132-143
    • (2000) Genomics , vol.64 , pp. 132-143
    • Vu, T.H.1    Li, T.2    Nguyen, D.3    Nguyen, B.T.4    Yao, X.M.5    Hu, J.F.6    Hoffman, A.R.7
  • 23
    • 45549101475 scopus 로고    scopus 로고
    • Relationship between DNA methylation states and transcription of individual isoforms encoded by the protocadherin-α gene cluster
    • Kawaguchi M., Toyama T., Kaneko R., Hirayama T., Kawamura Y., and Yagi T. Relationship between DNA methylation states and transcription of individual isoforms encoded by the protocadherin-α gene cluster. J. Biol. Chem. 283 (2008) 12064-12075
    • (2008) J. Biol. Chem. , vol.283 , pp. 12064-12075
    • Kawaguchi, M.1    Toyama, T.2    Kaneko, R.3    Hirayama, T.4    Kawamura, Y.5    Yagi, T.6
  • 24
    • 48049088771 scopus 로고    scopus 로고
    • Parentally imprinted allele (PIA) typing in the differentially methylated region upstream of the human H19 gene
    • Huang D., Lin X., Chen H., Yang Q., Jie Y., Zhai X., and Yin H. Parentally imprinted allele (PIA) typing in the differentially methylated region upstream of the human H19 gene. Forensic Sci. Int. Genet. 2 (2008) 286-291
    • (2008) Forensic Sci. Int. Genet. , vol.2 , pp. 286-291
    • Huang, D.1    Lin, X.2    Chen, H.3    Yang, Q.4    Jie, Y.5    Zhai, X.6    Yin, H.7
  • 28
    • 0030697141 scopus 로고    scopus 로고
    • Detection and measurement of PCR bias in quantitative methylation analysis of bisulphate-treated DNA
    • Warnecke P.M., Stirzaker C., Melki J.R., Millar D.S., Paul C.L., and Clark S.J. Detection and measurement of PCR bias in quantitative methylation analysis of bisulphate-treated DNA. Nucleic Acids Res. 25 (1997) 4422-4426
    • (1997) Nucleic Acids Res. , vol.25 , pp. 4422-4426
    • Warnecke, P.M.1    Stirzaker, C.2    Melki, J.R.3    Millar, D.S.4    Paul, C.L.5    Clark, S.J.6
  • 29
    • 69949106668 scopus 로고    scopus 로고
    • A new approach to primer design for the control of PCR bias in methylation studies
    • Wojdacz T.K., Hansen L.L., and Dobrovic A. A new approach to primer design for the control of PCR bias in methylation studies. BMC Res. Notes 1 (2008) 54
    • (2008) BMC Res. Notes , vol.1 , pp. 54
    • Wojdacz, T.K.1    Hansen, L.L.2    Dobrovic, A.3
  • 30
    • 42649083650 scopus 로고    scopus 로고
    • Single-molecule polymerase chain reaction reduces bias: application to DNA methylation analysis by bisulfite sequencing
    • Chhibber A., and Schroeder B.G. Single-molecule polymerase chain reaction reduces bias: application to DNA methylation analysis by bisulfite sequencing. Anal. Biochem. 377 (2008) 46-54
    • (2008) Anal. Biochem. , vol.377 , pp. 46-54
    • Chhibber, A.1    Schroeder, B.G.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.