Epigenetic Methylation Station

Your source for information, protocols, and bioinformatics about epigenetics and DNA methylation.

Epigenetic References – PUBMED Articles

Posted on

Ahuja N, Mohan AL, Li Q, Stolker JM, Herman JG, Hamilton SR, Baylin SB, and Issa JP. Association between CpG island methylation and microsatellite instability in colorectal cancer. Cancer Res. 57 , 3370-3374 (1997)

Antequera F, and Bird A. Number of CpG islands and genes in human and mouse. Proc. Natl. Acad. Sci. USA 90 , 11995-11999 (1993)

Asakai R, Davie EW, and Chung DW. Organization of the gene for human Factor XI. Biochemistry 26 , 7221-7228 (1987)

Avner P, and Heard E. X-chromosome inactivation: counting, choice and initiation. Nature Genet. Rev. 2 , 59-67 (2001)

Aznavoorian S, Murphy AN, Stetler-Stevenso WG, Liotta LA. Molecular aspects of tumor cell invasion and metastasis. Cancer 71 , 1368-1383 (1993)

Beard C, Li E, and Jaenisch R. Loss of methylation activates Xist in somatic but not in embryonic cells. Genes Dev. 9 , 2325-2334 (1995)

Bird A. DNA methylation patterns and epigenetic memory. Genes Dev. 16 , 6-21 (2002)

Bird AP. CpG-rich islands and the function of DNA methylation. Nature 32 , 209-212 (1986)

Bird AP. The relationship of DNA methylation to cancer. Cancer Surv. 28 , 87-101 (1996)

Bird AP, and Wolffe AP. Methylation-induced repression – belts, braces, and chromatin. Cell 99 , 451-454 (1999)

Cameron EE, Bachman KE, Myohanen S, Herman JG, and Baylin SB. Synergy of demethylation and histone deacetylase inhibition in the re-expression of genes silenced in cancer. Nat. Genet. 21 , 103-107 (1999)

Chuang, L. Human DNA-(cytosine-5) methyltransferase-PCNA complex is target for p21 Waf1 . Science 277 , 1996-2000 (1997)

Cihak A. Biological effects of 5-azacytidine in eukaryotes. Oncology 30 , 405-422 (1974)

Courtier B, Heard E, and Avner P. Xce haplotypes show modified methylation ina region of the active X chromosome lying 3′ to Xist. Proc. Natl. Acad. Sci USA 92 , 3521-3535 (1995)

Dano K, Andreasen PA, Grohnadel-Hansen J, Kristensen PI, Nielsen LS, and Skriver, L. Plasminogen activators, tissue degradation and cancer. Adv. Cancer Res. 44 , 139-266 (1985)

Ehrlich M, Gama-Sosa MA, Huang LH, Medigett RM, Kuo KC, McCune RA, and Gehrke C. Amount and distribution of 5-methylcytosine in human DNA from different types of cells. Nucleic Acids Res. 10 , 2709-2721 (1982)

Esteller M, Hamilton SR, Burger PC, Baylin SB, and Herman JG. Inactivation of the DNA repair gene O 6-methylguanine-DNA methyltransferase by promoter hypermethylation is a common event in primary human neoplasia. Cancer Res. 793-797 (1999)

Frommer M, McDonald LE, Millar DS, Collis CM, Watt F, Grigg GW, Molloy PL, and Paul CL. A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc. Natl. Acad. Sci. USA 89 , 1827-1831 (1992)

Gardiner-Garden, M., and Frommer, M. CpG islands in vertebrate genomes. J. Mol. Biol. 196 , 261-282 (1987)

Goelz SE, Vogelstein B, Hamilton SR, and Feinberg AP. Hypomethylation of DNA from benign and malignant human colon neoplasms. Science 228 , 187-190, 1985

Heard E, Clerc P, and Avner P. X-chromosome inactivation in mammals. Annu. Rev. Genet. 31 , 571-610 (1997)

Herman JG, Merlo A, Mao L, Lapidus RG, Issa JP, Davidson NE, Sidransky D, and Baylin SB. Inactivation of the CDKN2/p16/MTS1 gene is frequently associated with aberrant DNA methylation in all common human cancers. Cancer Res. 55 , 4525-4530 (1995)

Herman JG, Graff JR, Myohanen S, Nelkin BD, and Baylin SB. Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands. Proc. Natl. Acad. Sci.USA 93 , 9821-9826 (1996)

Herman JG, Umar A, Polyak K, Graff JR, Ahuja N, Issa JP, Markowitz S, Wilson JK, Hamilton SR, Kinzler KW, Kane MF, Kolodner RD, Vogelstein B, Kunkel TA, and Baylin SB. Incidence and functional consequences of hMLH1 promoter hypermethylation in colorectal carcinoma. Proc. Natl. Acad. Sci. USA 95 , 6870-6875 (1998)

Horl WH. Proteinases: potential role in health and disease, in: Sandler M., and Smith HJ (Eds.), Design of enzyme inhibitors as drugs, Oxford University Press, Oxford, 1989, pp. 573-581

Hung MS, Karthikeyan N, Huang B, Koo HC, Kiger J, and Shen CJ. Drosophila proteins related to vertebrate DNA (5-cytosine) methyltransferases. Proc. Natl. Acad. Sci. USA 96 , 11940-11945 (1999)

Issa JP, Ottaviano YL, Celano P, Hamilton SR, Davidson NE , and Baylin SB. Methylation of the oestrogen receptor CpG island links ageing and neoplasia in human colon. Nat. Genet. 7 , 536-540 (1994)

Jaenisch R, Schnieke A, and Harbers K. Treatment of mice with 5-azacytidine efficiently activates silent retroviral genomes in different tissues. Proc. Natl. Acad. Sci. USA 82 , 1451-1455 (1985)

Jones PA, and Laird PW. Cancer epigenetics comes of age. Nat. Genet. 21 ,163-167 (1999)

Jones PA, and Baylin SB. The fundamental role of epigenetic events in cancer. Nat. Rev. Genet. 3 , 415-428 (2002)

Jones PL , Veenstra GJ, Wade PA, Vermaak D, Kass SU, Landsberger N, Strouboulis J, and Wolffe AP. Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription. Nature Genet. 19 , 187-191 (1998)

Kane MF, Loda M, Gaida GM, Lipman J, Mishra R, Goldman H, Jessup JM, and Kolodner R. Methylation of the hMLH1 promoter correlates with lack of expression of hMLH1 in sporadic colon tumors and mismatch repair-defetive human tumor cell lines. Cancer Res. 57 , 808-811 (1997)

Kass SU, Landsberger N, and Wolfe AP. DNA methylation directs a time-dependent repression of transcription initiation. Curr. Biol. 7 , 157-165 (1997)

Kraut H, Frey EK, and Werle E. Der Nachweis eines Kreislaufhormon in de Pankreasdruse. Hoppe-Seylers Z Physiol. Chem. 189 , 97-106 (1930)

Ioshikhes IP, and Zhang MQ. Large-scale human promoter mapping using CpG islands. Nat. Genet. 26 , 61-63 (2000)

Lee JT, Davidow LS, and Warshawsky D. TsiX , a gene antisense to Xist at the X-inactivation center. Nature Genet. 21 , 400-404 (1999)

Lee WH et al. Cytidine methylation of regulatory sequences near the pi-class glutathione S-transferase gene accompanies human prostatic carcinogenesis. Proc. Natl. Acad. Sci. USA 91 , 11733-11737 (1994)

Leonhardt H, Page A, Weier H, and Bestor TH. A targeting sequence directs DNA methyltransferase to sites of DNA replication in mammalian nuclei. Cell 71 , 865-873 (1992)

Li E, Bestor TH, and Jaenisch R. Targeted mutation of the DNA methyltransferase gene results in embryonic lethality. Cell 69 , 915-926 (1992)

Li E, Beard C, and Jaenisch R. Role for DNA methylation in genomic imprinting. Nature 366 , 362-365 (1993)

Liang G, Gonzales FA, Jones PA, Orntoft TF, and Thykjaer T. Analysis of gene induction in human fibroblasts and bladder cancer cells exposed to the methylation inhibitor 5-aza-2′-deoxycytidine. Cancer Res. 62 , 961-966 (2002)

Lin X et al. Reversal of GSTP1 CpG island hypermethylation and reactivation of pi-class glutathione S-transferase (GSTP1) expression in human prostate cancer cells by treatment with procainamide. Cancer Res. 61 , 8611-8616 (2001)

Lubbert M. DNA methylation inhibitors in the treatment of leukemias, myelodysplastic syndromes and hemoglobinopathies: clinical results and possible mechanisms of action. Curr. Top. Microbiol. Immunol. 249 , 135-164 (2000)

McCawley LJ, Matrisian LM. Tumor progression: defining the soil round the tumor seed. Curr. Biol. 11 , R25-R27 (2001)

McGrath J, and Solter D. Comparison of mouse embryogenesis requires both the maternal and paternal genomes. Cell 37 , 179-183 (1984)

Merlo A, Herman J, Mao L, Lee D, Gabrielson E, Burger P, Baylin S, and Sidransky D. 5′ CpG island methylation is associated with transcriptional silencing of the tumor suppresssor p16/CDKN2/MTS1 in human cancers. Nat. Med. 1 , 686-692 (1995)

Mermoud JE, Constanzi C, Pehrson JR, and Brockdorff N. Histone macroH2A relocates to the inactive X chromosome after initiation and propagation of X inactivation. J. Cell Biol. 147 , 1399-1408 (1999)

Mohandas T, Sparkes RS, and Shapiro LJ. Reactication of an inactive X chromosome: evidence for X inactivation by DNA methylation. Science 211 , 393-396 (1981)

Momparler L, and Bovenzi V. DNA methylation and cancer. J. Cell. Physiol. 183 , 145-154 (2000)

Momparler RL. Molecular, cellular and animal pharmacology of 5-aza-2′-deoxycytidine. Pharmacol. Ther. 30 , 287-299 (2002)

Murzina N, Verreault A, Laue E, and Stillman B. Heterochromatin dynamics in mouse cells: interaction between chromatin assembly factor 1 and HP1 proteins. Mol. Cell 4 , 529-540 (1999)

Nelson AR, Fingleton B, Rothenberg ML, Matrisian LM. Matrix metalloproteinases: biologic activity and clinical implications. J. Clin. Oncol. 18 , 1135-1149 (2000)

Neumann B, Kubicka P, and Barlow DP. Characteristics of imprinted genes. Nature Genet. 9 , 12-13 (1995)

Ng HH, Zhang Y, Hendrich B, Johnson CA , Turner BM, Erdjument-Bromage H, Tempst P, Reinberg D, and Bird A. MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex. Nature Genet. 23 , 58-61 (1999)

Okano M, Xie S, and Li E. Cloning and characterization of a family of novel mammalian DNA (cytosine-5) methyltransferases. Nature Genetic . 19 , 219-220 (1998)

Okano M, Bell D, Haber D, and Li W. DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell 99 , 247-257 (1999)

Paulsen M, El-Maarri O, Engemann S, Strodicke M, Franck O, Davies K, Reinhardt R, Reik W, and Walter J. Sequence conservation and variability of imprinting in the Beckwith-Wiedemann syndrome gene cluster in human and mouse. Hum. Mol. Genet. 9 , 1829-1841 (2000)

Reik W, Collick A, Norris ML, Barton SC, and Surani MA. Genomic imprinting determines methylation of parental alleles in transgenic mice. Nature 351 , 665-667 (1991)

Reik W, and Walter J. Genomic imprinting: parental influences on the genome. Nature 2 , 21-32 (2001)

Robertson KD, Uzyolgyi E, Liang G, Talmadge C, Sumegi J, Gonzales FA, and Jones PA. The human DNA methyltransferases (DNMTs) 1, 3a, 3b: Coordinate mRNA expression in normal tissues and overexpression in tumors. Nucleic Acids Res. 27 , 2291-2298 (1999)

Roberston KD, Ait-Si-Ali S, Yokochi T, Wade PA, Jones PL , and Wolffe AP. DNMT1 forms a complex with Rb, E2F1, and HDAC1 and represses transcription from E2F-responsive promoters. Nature Genet. 25 , 338-342 (2000)

Robertson, K.D. and Wolffe, A.P. DNA methylation in health and disease. Nature Rev. Genet. 1 , 11-19 (2000a)

Roundtree MR, Bachman KE, and Baylin SB. DNMT1 binds HDAC2 and a new co-repressor at replication foci. Nature Genet. 25 , 269-277 (2000)

Sado T, Fenner MH, Tan SS, Tam P, Shioda T, and Li E. X Inactivation in the mouse embryo deficient for Dnmt1: distinct effect of hypomethylation on imprinted and random X inactivation. Dev. Biol. 225 , 294-303 (2000)

Shapiro R, Braverman B, Louis JB, and Serivs RE. Nucleic acid reactivity and conformation. II. Reaction of cytosine and uracil with sodium bisulfite. J. Biol. Chem. 248 , 4060-4064 (1973)

Sheikhnejad G, Brank A, Christman JK, Goddard A, Alvarez E, Ford H, Marquez VE, Marasco CJ, Sufrin JR, O’Gara M, and Cheng X. Mechanism of inhibition of DNA (cytosine C5)- methyltranscferases by oligodeoxyribonucleotides containing 5, 6-dihydro-5-azacytosine. J. Mol. Biol. 285 , 2021-2034 (1999)

Simpkins, SB. MLH1 promoter methylation and gene silencing is the primary cause of microsatellite instability in sporadic endometrial cancers. Hum. Mol. Genet. 8 , 661-666 (1999)

Soengas MS, Capodieci P, Polsky D, Mora J, Esteller M, Opitz-Araya X, McCombie R, Herman JG, Gerald WL, Lazebruik YA, Cordon-Cardo C, and Lowe SW. Inactivation of the apoptosis effector Apaf-1 in malignant melanoma. Nature 409 , 207-211 (2001)

Stallmach A, Wittig BM, Kremp WK, Goebel KR, Santourlidis S, Zeitz M, Menges, Raedle J, Zeuzem S and Schulz WA. Downregulation of CD44v6 in colorectal carcinomas is accosiated with hypermethylation of the CD44 promoter region. Exp. Mol. Pathology 74 , 262-266 (2003)

Strathdee G, and Brown R. Aberrant DNA methylation in cancer: potential clinical interventions. Exp. Rev. Mol. Med. ( Cam . UK ) 4 , 1-17 (2002)

Struhl K. Histone acetylation and transcriptional regulatory mechanisms. Genes Dev. 12 , 599-606 (1998)

Surani MAH, Barton SC , and Norris ML. Development of reconstituted mouse eggs suggests imprinting of the genome during gametogenesis. Nature 308 , 548-550 (1984)

Tweedie S. Vestiges of DNA methylation system in Drosophila melanogaster. Nature Genetics 23 , 389-390 (1999)

Vu TH, Chuyen NV , Li T, and Hoffman AR. Loss of imprinting of IGF2 sense and antisense transcripts in Wilms’ tumor. Cancer Res. 63 , 1900-1905 (2003)

Wolf SF, and Migeon BR. Studies of X chromosome DNA methylation in normal human cells. Nature 295 , 667-671 (1982)

Yan L, Yang X, and Davidson N E. Role of DNA methylation and histone acetylation in steroid receptor expression in breast cancer. J. of Mammary Gland Biol. and Neoplasia 6 , 183-192 (2001)

Yoshiura K, Kanai Y, Ochiai A, Shimoyama Y, Sugimura T, and Hirohashi S. Silencing of the E-cadherin invasion-suppressor gene by CpG methylation in human cardcinomas. Proc. Natl. Acad. Sci. USA 92 , 7416-7419 (1995)

Leave a Reply

Your email address will not be published.*