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Inferring clonal expansion and cancer stem cell dynamics from DNA methylation patterns in colorectal cancers.

Siegmund KD, Marjoram P, Woo YJ, Tavaré S, Shibata D.

Proc Natl Acad Sci U S A. 2009 Mar 24;106(12):4828-33. doi: 10.1073/pnas.0810276106. Epub 2009 Mar 4.


Methylation of polycomb target genes in intestinal cancer is mediated by inflammation.

Hahn MA, Hahn T, Lee DH, Esworthy RS, Kim BW, Riggs AD, Chu FF, Pfeifer GP.

Cancer Res. 2008 Dec 15;68(24):10280-9. doi: 10.1158/0008-5472.CAN-08-1957.


The expression and clinical significance of DNA methyltransferase proteins in human gastric cancer.

Ding WJ, Fang JY, Chen XY, Peng YS.

Dig Dis Sci. 2008 Aug;53(8):2083-9. doi: 10.1007/s10620-007-0145-2. Epub 2008 Feb 6.


Dnmt3b promotes tumorigenesis in vivo by gene-specific de novo methylation and transcriptional silencing.

Linhart HG, Lin H, Yamada Y, Moran E, Steine EJ, Gokhale S, Lo G, Cantu E, Ehrich M, He T, Meissner A, Jaenisch R.

Genes Dev. 2007 Dec 1;21(23):3110-22.


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.


CpG island methylation is frequently present in tubulovillous and villous adenomas and correlates with size, site, and villous component.

Kakar S, Deng G, Cun L, Sahai V, Kim YS.

Hum Pathol. 2008 Jan;39(1):30-6. Epub 2007 Oct 24.


Age and gender affect DNMT3a and DNMT3b expression in human liver.

Xiao Y, Word B, Starlard-Davenport A, Haefele A, Lyn-Cook BD, Hammons G.

Cell Biol Toxicol. 2008 Jun;24(3):265-72. Epub 2007 Oct 11.


LINE-1 hypomethylation in cancer is highly variable and inversely correlated with microsatellite instability.

Estécio MR, Gharibyan V, Shen L, Ibrahim AE, Doshi K, He R, Jelinek J, Yang AS, Yan PS, Huang TH, Tajara EH, Issa JP.

PLoS One. 2007 May 2;2(5):e399.


Homeobox gene methylation in lung cancer studied by genome-wide analysis with a microarray-based methylated CpG island recovery assay.

Rauch T, Wang Z, Zhang X, Zhong X, Wu X, Lau SK, Kernstine KH, Riggs AD, Pfeifer GP.

Proc Natl Acad Sci U S A. 2007 Mar 27;104(13):5527-32. Epub 2007 Mar 16.


DNA methylation as a therapeutic target in cancer.

Issa JP.

Clin Cancer Res. 2007 Mar 15;13(6):1634-7. Review.


The epigenomics of cancer.

Jones PA, Baylin SB.

Cell. 2007 Feb 23;128(4):683-92. Review.


A stem cell-like chromatin pattern may predispose tumor suppressor genes to DNA hypermethylation and heritable silencing.

Ohm JE, McGarvey KM, Yu X, Cheng L, Schuebel KE, Cope L, Mohammad HP, Chen W, Daniel VC, Yu W, Berman DM, Jenuwein T, Pruitt K, Sharkis SJ, Watkins DN, Herman JG, Baylin SB.

Nat Genet. 2007 Feb;39(2):237-42. Epub 2007 Jan 9.


Epigenetic stem cell signature in cancer.

Widschwendter M, Fiegl H, Egle D, Mueller-Holzner E, Spizzo G, Marth C, Weisenberger DJ, Campan M, Young J, Jacobs I, Laird PW.

Nat Genet. 2007 Feb;39(2):157-8. Epub 2006 Dec 31.


Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer.

Schlesinger Y, Straussman R, Keshet I, Farkash S, Hecht M, Zimmerman J, Eden E, Yakhini Z, Ben-Shushan E, Reubinoff BE, Bergman Y, Simon I, Cedar H.

Nat Genet. 2007 Feb;39(2):232-6. Epub 2006 Dec 31.


DNA methylation profiling of human chromosomes 6, 20 and 22.

Eckhardt F, Lewin J, Cortese R, Rakyan VK, Attwood J, Burger M, Burton J, Cox TV, Davies R, Down TA, Haefliger C, Horton R, Howe K, Jackson DK, Kunde J, Koenig C, Liddle J, Niblett D, Otto T, Pettett R, Seemann S, Thompson C, West T, Rogers J, Olek A, Berlin K, Beck S.

Nat Genet. 2006 Dec;38(12):1378-85. Epub 2006 Oct 29.


Epigenetics in colorectal cancer.

Shen L, Issa JP.

Curr Opin Gastroenterol. 2002 Jan;18(1):68-73.


Control of developmental regulators by Polycomb in human embryonic stem cells.

Lee TI, Jenner RG, Boyer LA, Guenther MG, Levine SS, Kumar RM, Chevalier B, Johnstone SE, Cole MF, Isono K, Koseki H, Fuchikami T, Abe K, Murray HL, Zucker JP, Yuan B, Bell GW, Herbolsheimer E, Hannett NM, Sun K, Odom DT, Otte AP, Volkert TL, Bartel DP, Melton DA, Gifford DK, Jaenisch R, Young RA.

Cell. 2006 Apr 21;125(2):301-13.


Polycomb complexes repress developmental regulators in murine embryonic stem cells.

Boyer LA, Plath K, Zeitlinger J, Brambrink T, Medeiros LA, Lee TI, Levine SS, Wernig M, Tajonar A, Ray MK, Bell GW, Otte AP, Vidal M, Gifford DK, Young RA, Jaenisch R.

Nature. 2006 May 18;441(7091):349-53. Epub 2006 Apr 19.


Aging in heterozygous Dnmt1-deficient mice: effects on survival, the DNA methylation genes, and the development of amyloidosis.

Ray D, Wu A, Wilkinson JE, Murphy HS, Lu Q, Kluve-Beckerman B, Liepnieks JJ, Benson M, Yung R, Richardson B.

J Gerontol A Biol Sci Med Sci. 2006 Feb;61(2):115-24.


Epigenetic changes in solid and hematopoietic tumors.

Toyota M, Issa JP.

Semin Oncol. 2005 Oct;32(5):521-30. Review.

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