-
1
-
-
84875167169
-
Non-canonical functions of the DNA methylome in gene regulation
-
Reddington JP, Pennings S, Meehan RR. 2013. Non-canonical functions of the DNA methylome in gene regulation. Biochem J 451: 13-23.
-
(2013)
Biochem J
, vol.451
, pp. 13-23
-
-
Reddington, J.P.1
Pennings, S.2
Meehan, R.R.3
-
2
-
-
33846649587
-
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, et al. 2007. Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer. Nat Genet 39: 232-6.
-
(2007)
Nat Genet
, vol.39
, pp. 232-236
-
-
Schlesinger, Y.1
Straussman, R.2
Keshet, I.3
Farkash, S.4
-
3
-
-
84856528270
-
Global DNA hypomethylation coupled to repressive chromatin domain formation and gene silencing in breast cancer
-
Hon GC, Hawkins RD, Caballero OL, Lo C, et al. 2012. Global DNA hypomethylation coupled to repressive chromatin domain formation and gene silencing in breast cancer. Genome Res 22: 246-58.
-
(2012)
Genome Res
, vol.22
, pp. 246-258
-
-
Hon, G.C.1
Hawkins, R.D.2
Caballero, O.L.3
Lo, C.4
-
4
-
-
84861912630
-
Programming of DNA methylation patterns
-
Cedar H, Bergman Y. 2012. Programming of DNA methylation patterns. Annu Rev Biochem 81: 97-117.
-
(2012)
Annu Rev Biochem
, vol.81
, pp. 97-117
-
-
Cedar, H.1
Bergman, Y.2
-
5
-
-
79956330964
-
CpG islands and the regulation of transcription
-
Deaton AM, Bird A. 2011. CpG islands and the regulation of transcription. Genes Dev 25: 1010-22.
-
(2011)
Genes Dev
, vol.25
, pp. 1010-1022
-
-
Deaton, A.M.1
Bird, A.2
-
6
-
-
83855163995
-
Uncovering the role of 5-hydroxymethylcytosine in the epigenome
-
Branco MR, Ficz G, Reik W. 2012. Uncovering the role of 5-hydroxymethylcytosine in the epigenome. Nat Rev Genet 13: 7-13.
-
(2012)
Nat Rev Genet
, vol.13
, pp. 7-13
-
-
Branco, M.R.1
Ficz, G.2
Reik, W.3
-
7
-
-
32344450824
-
Genomic DNA methylation: the mark and its mediators
-
Klose RJ, Bird AP. 2006. Genomic DNA methylation: the mark and its mediators. Trends Biochem Sci 31: 89-97.
-
(2006)
Trends Biochem Sci
, vol.31
, pp. 89-97
-
-
Klose, R.J.1
Bird, A.P.2
-
8
-
-
1042278765
-
The history of cancer epigenetics
-
Feinberg AP, Tycko B. 2004. The history of cancer epigenetics. Nat Rev Cancer 4: 143-53.
-
(2004)
Nat Rev Cancer
, vol.4
, pp. 143-153
-
-
Feinberg, A.P.1
Tycko, B.2
-
9
-
-
33846569960
-
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, et al. 2007. A stem cell-like chromatin pattern may predispose tumor suppressor genes to DNA hypermethylation and heritable silencing. Nat Genet 39: 237-42.
-
(2007)
Nat Genet
, vol.39
, pp. 237-242
-
-
Ohm, J.E.1
McGarvey, K.M.2
Yu, X.3
Cheng, L.4
-
10
-
-
33846576622
-
Epigenetic stem cell signature in cancer
-
Widschwendter M, Fiegl H, Egle D, Mueller-Holzner E, et al. 2007. Epigenetic stem cell signature in cancer. Nat Genet 39: 157-8.
-
(2007)
Nat Genet
, vol.39
, pp. 157-158
-
-
Widschwendter, M.1
Fiegl, H.2
Egle, D.3
Mueller-Holzner, E.4
-
11
-
-
84878441665
-
Genomic insights into cancer-associated aberrant CpG island hypermethylation
-
Sproul D, Meehan RR. 2013. Genomic insights into cancer-associated aberrant CpG island hypermethylation. Brief Funct Genomics 12: 174-90.
-
(2013)
Brief Funct Genomics
, vol.12
, pp. 174-190
-
-
Sproul, D.1
Meehan, R.R.2
-
12
-
-
79952716583
-
Transcriptionally repressed genes become aberrantly methylated and distinguish tumors of different lineages in breast cancer
-
Sproul D, Nestor C, Culley J, Dickson JH, et al. 2011. Transcriptionally repressed genes become aberrantly methylated and distinguish tumors of different lineages in breast cancer. Proc Natl Acad Sci USA 108: 4364-9.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 4364-4369
-
-
Sproul, D.1
Nestor, C.2
Culley, J.3
Dickson, J.H.4
-
13
-
-
31744433660
-
Evidence for an instructive mechanism of de novo methylation in cancer cells
-
Keshet I, Schlesinger Y, Farkash S, Rand E, et al. 2006. Evidence for an instructive mechanism of de novo methylation in cancer cells. Nat Genet 38: 149-53.
-
(2006)
Nat Genet
, vol.38
, pp. 149-153
-
-
Keshet, I.1
Schlesinger, Y.2
Farkash, S.3
Rand, E.4
-
14
-
-
84881086323
-
Cancer as a dysregulated epigenome allowing cellular growth advantage at the expense of the host
-
Timp W, Feinberg AP. 2013. Cancer as a dysregulated epigenome allowing cellular growth advantage at the expense of the host. Nat Rev Cancer 13: 497-510.
-
(2013)
Nat Rev Cancer
, vol.13
, pp. 497-510
-
-
Timp, W.1
Feinberg, A.P.2
-
15
-
-
79960927422
-
Increased methylation variation in epigenetic domains across cancer types
-
Hansen KD, Timp W, Bravo HC, Sabunciyan S, et al. 2011. Increased methylation variation in epigenetic domains across cancer types. Nat Genet 43: 768-75.
-
(2011)
Nat Genet
, vol.43
, pp. 768-775
-
-
Hansen, K.D.1
Timp, W.2
Bravo, H.C.3
Sabunciyan, S.4
-
16
-
-
84655162785
-
Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains
-
Berman BP, Weisenberger DJ, Aman JF, Hinoue T, et al. 2012. Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains. Nat Genet 44: 40-6.
-
(2012)
Nat Genet
, vol.44
, pp. 40-46
-
-
Berman, B.P.1
Weisenberger, D.J.2
Aman, J.F.3
Hinoue, T.4
-
17
-
-
0242584449
-
Induction of tumors in mice by genomic hypomethylation
-
Gaudet F, Hodgson JG, Eden A, Jackson-Grusby L, et al. 2003. Induction of tumors in mice by genomic hypomethylation. Science 300: 489-92.
-
(2003)
Science
, vol.300
, pp. 489-492
-
-
Gaudet, F.1
Hodgson, J.G.2
Eden, A.3
Jackson-Grusby, L.4
-
18
-
-
26444473234
-
Opposing effects of DNA hypomethylation on intestinal and liver carcinogenesis
-
Yamada Y, Jackson-Grusby L, Linhart H, Meissner A, et al. 2005. Opposing effects of DNA hypomethylation on intestinal and liver carcinogenesis. Proc Natl Acad Sci USA 102: 13580-5.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 13580-13585
-
-
Yamada, Y.1
Jackson-Grusby, L.2
Linhart, H.3
Meissner, A.4
-
19
-
-
0030988255
-
Preferential induction of chromosome 1 multibranched figures and whole-arm deletions in a human pro-B cell line treated with 5-azacytidine or 5-azadeoxycytidine
-
Hernandez R, Frady A, Zhang XY, Varela M, et al. 1997. Preferential induction of chromosome 1 multibranched figures and whole-arm deletions in a human pro-B cell line treated with 5-azacytidine or 5-azadeoxycytidine. Cytogenet Cell Genet 76: 196-201.
-
(1997)
Cytogenet Cell Genet
, vol.76
, pp. 196-201
-
-
Hernandez, R.1
Frady, A.2
Zhang, X.Y.3
Varela, M.4
-
20
-
-
0033547330
-
Chromosome instability and immunodeficiency syndrome caused by mutations in a DNA methyltransferase gene
-
Xu GL, Bestor TH, Bourc'his D, Hsieh CL, et al. 1999. Chromosome instability and immunodeficiency syndrome caused by mutations in a DNA methyltransferase gene. Nature 402: 187-91.
-
(1999)
Nature
, vol.402
, pp. 187-191
-
-
Xu, G.L.1
Bestor, T.H.2
Bourc'his, D.3
Hsieh, C.L.4
-
21
-
-
84875999688
-
Long interspersed element-1 (LINE-1): passenger or driver in human neoplasms
-
Rodic N, Burns KH. 2013. Long interspersed element-1 (LINE-1): passenger or driver in human neoplasms? PLoS Genet 9: e1003402.
-
(2013)
PLoS Genet
, vol.9
-
-
Rodic, N.1
Burns, K.H.2
-
22
-
-
84865285978
-
Landscape of somatic retrotransposition in human cancers
-
Lee E, Iskow R, Yang L, Gokcumen O, et al. 2012. Landscape of somatic retrotransposition in human cancers. Science 337: 967-71.
-
(2012)
Science
, vol.337
, pp. 967-971
-
-
Lee, E.1
Iskow, R.2
Yang, L.3
Gokcumen, O.4
-
23
-
-
84875698271
-
Endogenous retrotransposition activates oncogenic pathways in hepatocellular carcinoma
-
Shukla R, Upton KR, Munoz-Lopez M, Gerhardt DJ, et al. 2013. Endogenous retrotransposition activates oncogenic pathways in hepatocellular carcinoma. Cell 153: 101-11.
-
(2013)
Cell
, vol.153
, pp. 101-111
-
-
Shukla, R.1
Upton, K.R.2
Munoz-Lopez, M.3
Gerhardt, D.J.4
-
24
-
-
77952414230
-
Hypomethylation of a LINE-1 promoter activates an alternate transcript of the MET oncogene in bladders with cancer
-
Wolff EM, Byun HM, Han HF, Sharma S, et al. 2010. Hypomethylation of a LINE-1 promoter activates an alternate transcript of the MET oncogene in bladders with cancer. PLoS Genet 6: e1000917.
-
(2010)
PLoS Genet
, vol.6
-
-
Wolff, E.M.1
Byun, H.M.2
Han, H.F.3
Sharma, S.4
-
25
-
-
84881484687
-
Expression of a large LINE-1-driven antisense RNA is linked to epigenetic silencing of the metastasis suppressor gene TFPI-2 in cancer
-
Cruickshanks HA, Vafadar-Isfahani N, Dunican DS, Lee A, et al. 2013. Expression of a large LINE-1-driven antisense RNA is linked to epigenetic silencing of the metastasis suppressor gene TFPI-2 in cancer. Nucleic Acids Res 41: 6857-9.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. 6857-6859
-
-
Cruickshanks, H.A.1
Vafadar-Isfahani, N.2
Dunican, D.S.3
Lee, A.4
-
26
-
-
77958481159
-
Nucleosome-interacting proteins regulated by DNA and histone methylation
-
Bartke T, Vermeulen M, Xhemalce B, Robson SC, et al. 2010. Nucleosome-interacting proteins regulated by DNA and histone methylation. Cell 143: 470-84.
-
(2010)
Cell
, vol.143
, pp. 470-484
-
-
Bartke, T.1
Vermeulen, M.2
Xhemalce, B.3
Robson, S.C.4
-
27
-
-
49649125042
-
Genome-scale DNA methylation maps of pluripotent and differentiated cells
-
Meissner A, Mikkelsen TS, Gu H, Wernig M, et al. 2008. Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature 454: 766-70.
-
(2008)
Nature
, vol.454
, pp. 766-770
-
-
Meissner, A.1
Mikkelsen, T.S.2
Gu, H.3
Wernig, M.4
-
28
-
-
70450217879
-
Human DNA methylomes at base resolution show widespread epigenomic differences
-
Lister R, Pelizzola M, Dowen RH, Hawkins RD, et al. 2009. Human DNA methylomes at base resolution show widespread epigenomic differences. Nature 462: 315-22.
-
(2009)
Nature
, vol.462
, pp. 315-322
-
-
Lister, R.1
Pelizzola, M.2
Dowen, R.H.3
Hawkins, R.D.4
-
29
-
-
84877318097
-
Single-molecule analysis of combinatorial epigenomic states in normal and tumor cells
-
Murphy PJ, Cipriany BR, Wallin CB, Ju CY, et al. 2013. Single-molecule analysis of combinatorial epigenomic states in normal and tumor cells. Proc Natl Acad Sci USA 110: 7772-7.
-
(2013)
Proc Natl Acad Sci USA
, vol.110
, pp. 7772-7777
-
-
Murphy, P.J.1
Cipriany, B.R.2
Wallin, C.B.3
Ju, C.Y.4
-
30
-
-
77953809032
-
Distinct epigenomic landscapes of pluripotent and lineage-committed human cells
-
Hawkins RD, Hon GC, Lee LK, Ngo Q, et al. 2010. Distinct epigenomic landscapes of pluripotent and lineage-committed human cells. Cell Stem Cell 6: 479-91.
-
(2010)
Cell Stem Cell
, vol.6
, pp. 479-491
-
-
Hawkins, R.D.1
Hon, G.C.2
Lee, L.K.3
Ngo, Q.4
-
31
-
-
84861883921
-
Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk
-
Brinkman AB, Gu H, Bartels SJ, Zhang Y, et al. 2012. Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk. Genome Res 22: 1128-38.
-
(2012)
Genome Res
, vol.22
, pp. 1128-1138
-
-
Brinkman, A.B.1
Gu, H.2
Bartels, S.J.3
Zhang, Y.4
-
32
-
-
44349131472
-
Gene silencing in cancer by histone H3 lysine 27 trimethylation independent of promoter DNA methylation
-
Kondo Y, Shen L, Cheng AS, Ahmed S, et al. 2008. Gene silencing in cancer by histone H3 lysine 27 trimethylation independent of promoter DNA methylation. Nat Genet 40: 741-50.
-
(2008)
Nat Genet
, vol.40
, pp. 741-750
-
-
Kondo, Y.1
Shen, L.2
Cheng, A.S.3
Ahmed, S.4
-
33
-
-
50849107031
-
Antagonism between DNA and H3K27 methylation at the imprinted Rasgrf1 locus
-
Lindroth AM, Park YJ, McLean CM, Dokshin GA, et al. 2008. Antagonism between DNA and H3K27 methylation at the imprinted Rasgrf1 locus. PLoS Genet 4: e1000145.
-
(2008)
PLoS Genet
, vol.4
-
-
Lindroth, A.M.1
Park, Y.J.2
McLean, C.M.3
Dokshin, G.A.4
-
34
-
-
77954842322
-
Dnmt3a-dependent nonpromoter DNA methylation facilitates transcription of neurogenic genes
-
Wu H, Coskun V, Tao J, Xie W, et al. 2010. Dnmt3a-dependent nonpromoter DNA methylation facilitates transcription of neurogenic genes. Science 329: 444-8.
-
(2010)
Science
, vol.329
, pp. 444-448
-
-
Wu, H.1
Coskun, V.2
Tao, J.3
Xie, W.4
-
35
-
-
84875333893
-
Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of Polycomb target genes
-
Reddington JP, Perricone SM, Nestor CE, Reichmann J, et al. 2013. Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of Polycomb target genes. Genome Biol 14: R25.
-
(2013)
Genome Biol
, vol.14
-
-
Reddington, J.P.1
Perricone, S.M.2
Nestor, C.E.3
Reichmann, J.4
-
36
-
-
84857190178
-
An interspecies analysis reveals a key role for unmethylated CpG dinucleotides in vertebrate Polycomb complex recruitment
-
Lynch MD, Smith AJ, De Gobbi M, Flenley M, et al. 2012. An interspecies analysis reveals a key role for unmethylated CpG dinucleotides in vertebrate Polycomb complex recruitment. EMBO J 31: 317-29.
-
(2012)
EMBO J
, vol.31
, pp. 317-329
-
-
Lynch, M.D.1
Smith, A.J.2
De Gobbi, M.3
Flenley, M.4
-
37
-
-
84870679663
-
Loss of the DNA methyltransferase MET1 Induces H3K9 hypermethylation at PcG target genes and redistribution of H3K27 trimethylation to transposons in Arabidopsis thaliana
-
Deleris A, Stroud H, Bernatavichute Y, Johnson E, et al. 2012. Loss of the DNA methyltransferase MET1 Induces H3K9 hypermethylation at PcG target genes and redistribution of H3K27 trimethylation to transposons in Arabidopsis thaliana. PLoS Genet 8: e1003062.
-
(2012)
PLoS Genet
, vol.8
-
-
Deleris, A.1
Stroud, H.2
Bernatavichute, Y.3
Johnson, E.4
-
38
-
-
79956302047
-
TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity
-
Williams K, Christensen J, Pedersen MT, Johansen JV, et al. 2011. TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity. Nature 473: 343-8.
-
(2011)
Nature
, vol.473
, pp. 343-348
-
-
Williams, K.1
Christensen, J.2
Pedersen, M.T.3
Johansen, J.V.4
-
39
-
-
84872255815
-
Coordinate regulation of DNA methylation and H3K27me3 in mouse embryonic stem cells
-
Hagarman JA, Motley MP, Kristjansdottir K, Soloway PD. 2013. Coordinate regulation of DNA methylation and H3K27me3 in mouse embryonic stem cells. PLoS One 8: e53880.
-
(2013)
PLoS One
, vol.8
-
-
Hagarman, J.A.1
Motley, M.P.2
Kristjansdottir, K.3
Soloway, P.D.4
-
40
-
-
84876871047
-
Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put
-
Simon JA, Kingston RE. 2013. Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put. Mol Cell 49: 808-24.
-
(2013)
Mol Cell
, vol.49
, pp. 808-824
-
-
Simon, J.A.1
Kingston, R.E.2
-
41
-
-
84878988149
-
KDM2B links the Polycomb repressive complex 1 (PRC1) to recognition of CpG islands
-
Farcas AM, Blackledge NP, Sudbery I, Long HK, et al. 2012. KDM2B links the Polycomb repressive complex 1 (PRC1) to recognition of CpG islands. eLife 1: e00205.
-
(2012)
eLife
, vol.1
-
-
Farcas, A.M.1
Blackledge, N.P.2
Sudbery, I.3
Long, H.K.4
-
42
-
-
79957912993
-
EZH2-mediated concordant repression of Wnt antagonists promotes beta-catenin-dependent hepatocarcinogenesis
-
Cheng AS, Lau SS, Chen Y, Kondo Y, et al. 2011. EZH2-mediated concordant repression of Wnt antagonists promotes beta-catenin-dependent hepatocarcinogenesis. Cancer Res 71: 4028-39.
-
(2011)
Cancer Res
, vol.71
, pp. 4028-4039
-
-
Cheng, A.S.1
Lau, S.S.2
Chen, Y.3
Kondo, Y.4
-
43
-
-
51349105905
-
Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line
-
Gal-Yam EN, Egger G, Iniguez L, Holster H, et al. 2008. Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line. Proc Natl Acad Sci USA 105: 12979-84.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 12979-12984
-
-
Gal-Yam, E.N.1
Egger, G.2
Iniguez, L.3
Holster, H.4
-
44
-
-
70349952171
-
Role of the polycomb protein EED in the propagation of repressive histone marks
-
Margueron R, Justin N, Ohno K, Sharpe ML, et al. 2009. Role of the polycomb protein EED in the propagation of repressive histone marks. Nature 461: 762-7.
-
(2009)
Nature
, vol.461
, pp. 762-767
-
-
Margueron, R.1
Justin, N.2
Ohno, K.3
Sharpe, M.L.4
-
45
-
-
84878543522
-
An aberrant transcription factor network essential for Wnt signaling and stem cell maintenance in glioblastoma
-
Rheinbay E, Suva ML, Gillespie SM, Wakimoto H, et al. 2013. An aberrant transcription factor network essential for Wnt signaling and stem cell maintenance in glioblastoma. Cell Rep 3: 1567-79.
-
(2013)
Cell Rep
, vol.3
, pp. 1567-1579
-
-
Rheinbay, E.1
Suva, M.L.2
Gillespie, S.M.3
Wakimoto, H.4
-
46
-
-
84872395684
-
Regional activation of the cancer genome by long-range epigenetic remodeling
-
Bert SA, Robinson MD, Strbenac D, Statham AL, et al. 2013. Regional activation of the cancer genome by long-range epigenetic remodeling. Cancer Cell 23: 9-22.
-
(2013)
Cancer Cell
, vol.23
, pp. 9-22
-
-
Bert, S.A.1
Robinson, M.D.2
Strbenac, D.3
Statham, A.L.4
-
47
-
-
84862979818
-
Distinct DNA methylomes of newborns and centenarians
-
Heyn H, Li N, Ferreira HJ, Moran S, et al. 2012. Distinct DNA methylomes of newborns and centenarians. Proc Natl Acad Sci USA 109: 10522-7.
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. 10522-10527
-
-
Heyn, H.1
Li, N.2
Ferreira, H.J.3
Moran, S.4
-
48
-
-
84876063296
-
The human placenta methylome
-
Schroeder DI, Blair JD, Lott P, Yu HO, et al. 2013. The human placenta methylome. Proc Natl Acad Sci USA 110: 6037-42.
-
(2013)
Proc Natl Acad Sci USA
, vol.110
, pp. 6037-6042
-
-
Schroeder, D.I.1
Blair, J.D.2
Lott, P.3
Yu, H.O.4
-
49
-
-
84868198427
-
Epigenomic analysis detects widespread gene-body DNA hypomethylation in chronic lymphocytic leukemia
-
Kulis M, Heath S, Bibikova M, Queiros AC, et al. 2012. Epigenomic analysis detects widespread gene-body DNA hypomethylation in chronic lymphocytic leukemia. Nat Genet 44: 1236-42.
-
(2012)
Nat Genet
, vol.44
, pp. 1236-1242
-
-
Kulis, M.1
Heath, S.2
Bibikova, M.3
Queiros, A.C.4
-
50
-
-
79960912486
-
Epigenetic variation and cellular Darwinism
-
Issa JP. 2011. Epigenetic variation and cellular Darwinism. Nat Genet 43: 724-6.
-
(2011)
Nat Genet
, vol.43
, pp. 724-726
-
-
Issa, J.P.1
|