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Integrated analysis of gene expression, CpG island methylation, and gene copy number in breast cancer cells by deep sequencing.

Sun Z, Asmann YW, Kalari KR, Bot B, Eckel-Passow JE, Baker TR, Carr JM, Khrebtukova I, Luo S, Zhang L, Schroth GP, Perez EA, Thompson EA.

PLoS One. 2011 Feb 25;6(2):e17490. doi: 10.1371/journal.pone.0017490.


Aberrant methylation and silencing of ARHI, an imprinted tumor suppressor gene in which the function is lost in breast cancers.

Yuan J, Luo RZ, Fujii S, Wang L, Hu W, Andreeff M, Pan Y, Kadota M, Oshimura M, Sahin AA, Issa JP, Bast RC Jr, Yu Y.

Cancer Res. 2003 Jul 15;63(14):4174-80.


Prediction of epigenetically regulated genes in breast cancer cell lines.

Loss LA, Sadanandam A, Durinck S, Nautiyal S, Flaucher D, Carlton VE, Moorhead M, Lu Y, Gray JW, Faham M, Spellman P, Parvin B.

BMC Bioinformatics. 2010 Jun 4;11:305. doi: 10.1186/1471-2105-11-305.


Methylation of estrogen and progesterone receptor gene 5' CpG islands correlates with lack of estrogen and progesterone receptor gene expression in breast tumors.

Lapidus RG, Ferguson AT, Ottaviano YL, Parl FF, Smith HS, Weitzman SA, Baylin SB, Issa JP, Davidson NE.

Clin Cancer Res. 1996 May;2(5):805-10.


DNMT3b overexpression contributes to a hypermethylator phenotype in human breast cancer cell lines.

Roll JD, Rivenbark AG, Jones WD, Coleman WB.

Mol Cancer. 2008 Jan 25;7:15. doi: 10.1186/1476-4598-7-15.


Mapping the regulatory sequences controlling 93 breast cancer-associated miRNA genes leads to the identification of two functional promoters of the Hsa-mir-200b cluster, methylation of which is associated with metastasis or hormone receptor status in advanced breast cancer.

Wee EJ, Peters K, Nair SS, Hulf T, Stein S, Wagner S, Bailey P, Lee SY, Qu WJ, Brewster B, French JD, Dobrovic A, Francis GD, Clark SJ, Brown MA.

Oncogene. 2012 Sep 20;31(38):4182-95. doi: 10.1038/onc.2011.584. Epub 2012 Jan 9.


Genome-wide profiling of DNA methylation reveals a class of normally methylated CpG island promoters.

Shen L, Kondo Y, Guo Y, Zhang J, Zhang L, Ahmed S, Shu J, Chen X, Waterland RA, Issa JP.

PLoS Genet. 2007 Oct;3(10):2023-36. Epub 2007 Sep 10.


Mapping of ER gene CpG island methylation-specific polymerase chain reaction.

Lapidus RG, Nass SJ, Butash KA, Parl FF, Weitzman SA, Graff JG, Herman JG, Davidson NE.

Cancer Res. 1998 Jun 15;58(12):2515-9.


Simultaneous CXCL12 and ESR1 CpG island hypermethylation correlates with poor prognosis in sporadic breast cancer.

Ramos EA, Camargo AA, Braun K, Slowik R, Cavalli IJ, Ribeiro EM, Pedrosa Fde O, de Souza EM, Costa FF, Klassen G.

BMC Cancer. 2010 Jan 28;10:23. doi: 10.1186/1471-2407-10-23.


Distinct patterns of promoter CpG island methylation of breast cancer subtypes are associated with stem cell phenotypes.

Park SY, Kwon HJ, Choi Y, Lee HE, Kim SW, Kim JH, Kim IA, Jung N, Cho NY, Kang GH.

Mod Pathol. 2012 Feb;25(2):185-96. doi: 10.1038/modpathol.2011.160. Epub 2011 Oct 28.


Determining the effect of DNA methylation on gene expression in cancer cells.

Lee CJ, Evans J, Kim K, Chae H, Kim S.

Methods Mol Biol. 2014;1101:161-78. doi: 10.1007/978-1-62703-721-1_9.


Genome-wide DNA methylation profiling of CpG islands in breast cancer identifies novel genes associated with tumorigenicity.

Hill VK, Ricketts C, Bieche I, Vacher S, Gentle D, Lewis C, Maher ER, Latif F.

Cancer Res. 2011 Apr 15;71(8):2988-99. doi: 10.1158/0008-5472.CAN-10-4026. Epub 2011 Mar 1. Erratum in: Cancer Res. 2012 Jun 15;72(12):3115.


[Screening for differential methylation status by CpG island microarray in the hepatocellular carcinoma cell lines].

Zheng D, Liu BB, Liu YK, Kang XN, Sun L, Guo K, Sun RX, Chen J, Zhao Y.

Zhonghua Zhong Liu Za Zhi. 2008 Dec;30(12):891-6. Chinese.


Aberrant promoter methylation and silencing of laminin-5-encoding genes in breast carcinoma.

Sathyanarayana UG, Padar A, Huang CX, Suzuki M, Shigematsu H, Bekele BN, Gazdar AF.

Clin Cancer Res. 2003 Dec 15;9(17):6389-94.


5' CpG island methylation of the FHIT gene is correlated with loss of gene expression in lung and breast cancer.

Zöchbauer-Müller S, Fong KM, Maitra A, Lam S, Geradts J, Ashfaq R, Virmani AK, Milchgrub S, Gazdar AF, Minna JD.

Cancer Res. 2001 May 1;61(9):3581-5.

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