-
1
-
-
84890734328
-
Zscan4 restores the developmental potency of embryonic stem cells
-
Amano T., Hirata T, Falco G, Monti M, Sharova LV, Amano M, Sheer S., Hoang HG, Piao Y, Stagg CA, et al. 2013. Zscan4 restores the developmental potency of embryonic stem cells. Nat Commun 4: 1966.
-
(2013)
Nat Commun
, vol.4
, pp. 1966
-
-
Amano, T.1
Hirata, T.2
Falco, G.3
Monti, M.4
Sharova, L.V.5
Amano, M.6
Sheer, S.7
Hoang, H.G.8
Piao, Y.9
Stagg, C.A.10
-
2
-
-
77950882645
-
CpG islands recruit a histone H3 lysine 36 demethylase
-
Blackledge N.P., Zhou JC, Tolstorukov MY, Farcas AM, Park PJ, Klose R.J. 2010. CpG islands recruit a histone H3 lysine 36 demethylase. Mol Cell 38: 179-190.
-
(2010)
Mol Cell
, vol.38
, pp. 179-190
-
-
Blackledge, N.P.1
Zhou, J.C.2
Tolstorukov, M.Y.3
Farcas, A.M.4
Park, P.J.5
Klose, R.J.6
-
3
-
-
80051558092
-
Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis
-
Bogdanovic O., Long SW, van Heeringen SJ, Brinkman AB, Gomez-Skarmeta J.L., Stunnenberg HG, Jones PL, Veenstra GJ. 2011. Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis. Genome Res 21: 1313-1327.
-
(2011)
Genome Res
, vol.21
, pp. 1313-1327
-
-
Bogdanovic, O.1
Long, S.W.2
van Heeringen, S.J.3
Brinkman, A.B.4
Gomez-Skarmeta, J.L.5
Stunnenberg, H.G.6
Jones, P.L.7
Veenstra, G.J.8
-
4
-
-
84901758151
-
The ability of inner-cell-mass cells to self-renew as embryonic stem cells is acquired following epiblast specification
-
Boroviak T., Loos R, Bertone P, Smith A, Nichols J. 2014. The ability of inner-cell-mass cells to self-renew as embryonic stem cells is acquired following epiblast specification. Nat Cell Biol 16: 516-528.
-
(2014)
Nat Cell Biol
, vol.16
, pp. 516-528
-
-
Boroviak, T.1
Loos, R.2
Bertone, P.3
Smith, A.4
Nichols, J.5
-
5
-
-
33646488931
-
Real-time PCR assay for measurement of mouse telomeres
-
Callicott R.J., Womack JE. 2006. Real-time PCR assay for measurement of mouse telomeres. Comp Med 56: 17-22.
-
(2006)
Comp Med
, vol.56
, pp. 17-22
-
-
Callicott, R.J.1
Womack, J.E.2
-
6
-
-
0036830642
-
Role of histone H3 lysine 27 methylation in Polycomb-group silencing
-
Cao R., Wang L, Wang H, Xia L, Erdjument-Bromage H, Tempst P, Jones RS, Zhang Y. 2002. Role of histone H3 lysine 27 methylation in Polycomb-group silencing. Science 298: 1039-1043.
-
(2002)
Science
, vol.298
, pp. 1039-1043
-
-
Cao, R.1
Wang, L.2
Wang, H.3
Xia, L.4
Erdjument-Bromage, H.5
Tempst, P.6
Jones, R.S.7
Zhang, Y.8
-
7
-
-
44649117905
-
Integration of external signaling pathways with the core transcriptional network in embryonic stem cells
-
Chen X., Xu H, Yuan P, Fang F, Huss M, Vega VB, Wong E, Orlov YL, Zhang W, Jiang J, et al. 2008. Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 133: 1106-1117.
-
(2008)
Cell
, vol.133
, pp. 1106-1117
-
-
Chen, X.1
Xu, H.2
Yuan, P.3
Fang, F.4
Huss, M.5
Vega, V.B.6
Wong, E.7
Orlov, Y.L.8
Zhang, W.9
Jiang, J.10
-
8
-
-
78650758676
-
Histone H3K27ac separates active from poised enhancers and predicts developmental state
-
Creyghton M.P., Cheng AW, Welstead GG, Kooistra T, Carey BW, Steine E.J., Hanna J, Lodato MA, Frampton GM, Sharp PA, et al. 2010. Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc Natl Acad Sci 107: 21931-21936.
-
(2010)
Proc Natl Acad Sci
, vol.107
, pp. 21931-21936
-
-
Creyghton, M.P.1
Cheng, A.W.2
Welstead, G.G.3
Kooistra, T.4
Carey, B.W.5
Steine, E.J.6
Hanna, J.7
Lodato, M.A.8
Frampton, G.M.9
Sharp, P.A.10
-
9
-
-
84898436514
-
Rif1 maintains telomere length homeostasis of ESCs by mediating heterochromatin silencing
-
Dan J., Liu Y, Liu N, Chiourea M, Okuka M, Wu T, Ye X, Mou C, Wang L., Wang L, et al. 2014. Rif1 maintains telomere length homeostasis of ESCs by mediating heterochromatin silencing. Dev Cell 29: 7-19.
-
(2014)
Dev Cell
, vol.29
, pp. 7-19
-
-
Dan, J.1
Liu, Y.2
Liu, N.3
Chiourea, M.4
Okuka, M.5
Wu, T.6
Ye, X.7
Mou, C.8
Wang, L.9
Wang, L.10
-
10
-
-
79961139741
-
Tet1 is dispensable for maintaining pluripotency and its loss is compatible with embryonic and postnatal development
-
Dawlaty M.M., Ganz K, Powell BE, Hu YC, Markoulaki S, Cheng AW, Gao Q, Kim J, Choi SW, Page DC, et al. 2011. Tet1 is dispensable for maintaining pluripotency and its loss is compatible with embryonic and postnatal development. Cell Stem Cell 9: 166-175.
-
(2011)
Cell Stem Cell
, vol.9
, pp. 166-175
-
-
Dawlaty, M.M.1
Ganz, K.2
Powell, B.E.3
Hu, Y.C.4
Markoulaki, S.5
Cheng, A.W.6
Gao, Q.7
Kim, J.8
Choi, S.W.9
Page, D.C.10
-
11
-
-
84873707539
-
Combined deficiency of tet1 and tet2 causes epigenetic abnormalities but is compatible with postnatal development
-
Dawlaty M.M., Breiling A, Le T, Raddatz G, Barrasa MI, Cheng AW, Gao Q, Powell BE, Li Z, Xu M, et al. 2013. Combined deficiency of tet1 and tet2 causes epigenetic abnormalities but is compatible with postnatal development. Dev Cell 24: 310-323.
-
(2013)
Dev Cell
, vol.24
, pp. 310-323
-
-
Dawlaty, M.M.1
Breiling, A.2
Le, T.3
Raddatz, G.4
Barrasa, M.I.5
Cheng, A.W.6
Gao, Q.7
Powell, B.E.8
Li, Z.9
Xu, M.10
-
12
-
-
84898482006
-
Loss of Tet enzymes compromises proper differentiation of embryonic stem cells
-
Dawlaty M.M., Breiling A, Le T, Barrasa MI, Raddatz G, Gao Q, Powell Benjamin E, Cheng Albert W, Faull Kym F, Lyko F, et al. 2014. Loss of Tet enzymes compromises proper differentiation of embryonic stem cells. Dev Cell 29: 102-111.
-
(2014)
Dev Cell
, vol.29
, pp. 102-111
-
-
Dawlaty, M.M.1
Breiling, A.2
Le, T.3
Barrasa, M.I.4
Raddatz, G.5
Gao, Q.6
Powell Benjamin, E.7
Cheng Albert, W.8
Faull Kym, F.9
Lyko, F.10
-
13
-
-
79956330964
-
CpG islands and the regulation of transcription
-
Deaton A.M., Bird A. 2011. CpG islands and the regulation of transcription. Genes Dev 25: 1010-1022.
-
(2011)
Genes Dev
, vol.25
, pp. 1010-1022
-
-
Deaton, A.M.1
Bird, A.2
-
14
-
-
84861095603
-
Topological domains in mammalian genomes identified by analysis of chromatin interactions
-
Dixon J.R., Selvaraj S, Yue F, Kim A, Li Y, Shen Y, Hu M, Liu JS, Ren B. 2012. Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature 485: 376-380.
-
(2012)
Nature
, vol.485
, pp. 376-380
-
-
Dixon, J.R.1
Selvaraj, S.2
Yue, F.3
Kim, A.4
Li, Y.5
Shen, Y.6
Hu, M.7
Liu, J.S.8
Ren, B.9
-
15
-
-
34347263069
-
Zscan4: A novel gene expressed exclusively in late 2-cell embryos and embryonic stem cells
-
Falco G., Lee SL, Stanghellini I, Bassey UC, Hamatani T, Ko MS. 2007. Zscan4: a novel gene expressed exclusively in late 2-cell embryos and embryonic stem cells. Dev Biol 307: 539-550.
-
(2007)
Dev Biol
, vol.307
, pp. 539-550
-
-
Falco, G.1
Lee, S.L.2
Stanghellini, I.3
Bassey, U.C.4
Hamatani, T.5
Ko, M.S.6
-
16
-
-
77954275263
-
Chromosome orientation fluorescence in situ hybridization to study sister chromatid segregation in vivo
-
Falconer E., Chavez E, Henderson A, Lansdorp PM. 2010. Chromosome orientation fluorescence in situ hybridization to study sister chromatid segregation in vivo. Nat Protoc 5: 1362-1377.
-
(2010)
Nat Protoc
, vol.5
, pp. 1362-1377
-
-
Falconer, E.1
Chavez, E.2
Henderson, A.3
Lansdorp, P.M.4
-
17
-
-
84878988149
-
KDM2B links the Polycomb Repressive Complex 1 (PRC1) to recognition of CpG islands
-
Farcas A.M., Blackledge NP, Sudbery I, Long HK, McGouran JF, Rose N.R., Lee S, Sims D, Cerase A, Sheahan TW, 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
McGouran, J.F.5
Rose, N.R.6
Lee, S.7
Sims, D.8
Cerase, A.9
Sheahan, T.W.10
-
18
-
-
79956323623
-
Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation
-
Ficz G., Branco MR, Seisenberger S, Santos F, Krueger F, Hore TA, Marques CJ, Andrews S, Reik W. 2011. Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation. Nature 473: 398-402.
-
(2011)
Nature
, vol.473
, pp. 398-402
-
-
Ficz, G.1
Branco, M.R.2
Seisenberger, S.3
Santos, F.4
Krueger, F.5
Hore, T.A.6
Marques, C.J.7
Andrews, S.8
Reik, W.9
-
19
-
-
38649126918
-
Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation
-
Fouse S.D., Shen Y, Pellegrini M, Cole S, Meissner A, Van Neste L, Jaenisch R., Fan G. 2008. Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation. Cell Stem Cell 2: 160-169.
-
(2008)
Cell Stem Cell
, vol.2
, pp. 160-169
-
-
Fouse, S.D.1
Shen, Y.2
Pellegrini, M.3
Cole, S.4
Meissner, A.5
Van Neste, L.6
Jaenisch, R.7
Fan, G.8
-
20
-
-
15744401773
-
Eukaryotic cytosine methyltransferases
-
Goll M.G., Bestor TH. 2005. Eukaryotic cytosine methyltransferases. Annu Rev Biochem 74: 481-514.
-
(2005)
Annu Rev Biochem
, vol.74
, pp. 481-514
-
-
Goll, M.G.1
Bestor, T.H.2
-
21
-
-
80053348585
-
The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes
-
Gu T.P., Guo F, Yang H, Wu HP, Xu GF, Liu W, Xie ZG, Shi L, He X, Jin SG, et al. 2011. The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes. Nature 477: 606-610.
-
(2011)
Nature
, vol.477
, pp. 606-610
-
-
Gu, T.P.1
Guo, F.2
Yang, H.3
Wu, H.P.4
Xu, G.F.5
Liu, W.6
Xie, Z.G.7
Shi, L.8
He, X.9
Jin, S.G.10
-
22
-
-
78149487692
-
Pluripotency and cellular reprogramming: Facts, hypotheses, unresolved issues
-
Hanna J.H., Saha K, Jaenisch R. 2010. Pluripotency and cellular reprogramming: facts, hypotheses, unresolved issues. Cell 143: 508-525.
-
(2010)
Cell
, vol.143
, pp. 508-525
-
-
Hanna, J.H.1
Saha, K.2
Jaenisch, R.3
-
23
-
-
80052495940
-
Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA
-
He Y.F., Li BZ, Li Z, Liu P, Wang Y, Tang Q, Ding J, Jia Y, Chen Z, Li L., et al. 2011. Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science 333: 1303-1307.
-
(2011)
Science
, vol.333
, pp. 1303-1307
-
-
He, Y.F.1
Li, B.Z.2
Li, Z.3
Liu, P.4
Wang, Y.5
Tang, Q.6
Ding, J.7
Jia, Y.8
Chen, Z.9
Li, L.10
-
24
-
-
84876497474
-
Kdm2b maintains murine embryonic stem cell status by recruiting PRC1 complex to CpG islands of developmental genes
-
He J., Shen L,WanM, Taranova O, Wu H, Zhang Y. 2013. Kdm2b maintains murine embryonic stem cell status by recruiting PRC1 complex to CpG islands of developmental genes. Nat Cell Biol 15: 373-384.
-
(2013)
Nat Cell Biol
, vol.15
, pp. 373-384
-
-
He, J.1
Shen, L.2
Wan, M.3
Taranova, O.4
Wu, H.5
Zhang, Y.6
-
25
-
-
33847334699
-
Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
-
Heintzman N.D., Stuart RK, Hon G, Fu Y, Ching CW, Hawkins RD, Barrera LO, Van Calcar S, Qu C, Ching KA, et al. 2007. Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome. Nat Genet 39: 311-318.
-
(2007)
Nat Genet
, vol.39
, pp. 311-318
-
-
Heintzman, N.D.1
Stuart, R.K.2
Hon, G.3
Fu, Y.4
Ching, C.W.5
Hawkins, R.D.6
Barrera, L.O.7
Van Calcar, S.8
Qu, C.9
Ching, K.A.10
-
26
-
-
0033153424
-
Disease states associated with telomerase deficiency appear earlier in mice with short telomeres
-
Herrera E., Samper E, Martin-Caballero J, Flores JM, Lee HW, Blasco M.A. 1999. Disease states associated with telomerase deficiency appear earlier in mice with short telomeres. EMBO J 18: 2950-2960.
-
(1999)
EMBO J
, vol.18
, pp. 2950-2960
-
-
Herrera, E.1
Samper, E.2
Martin-Caballero, J.3
Flores, J.M.4
Lee, H.W.5
Blasco, M.A.6
-
27
-
-
84894560490
-
Crystal structure of TET2-DNA complex: Insight into TET-mediated 5mC oxidation
-
Hu L., Li Z, Cheng J, Rao Q, Gong W, Liu M, Shi YG, Zhu J, Wang P., Xu Y. 2013. Crystal structure of TET2-DNA complex: insight into TET-mediated 5mC oxidation. Cell 155: 1545-1555.
-
(2013)
Cell
, vol.155
, pp. 1545-1555
-
-
Hu, L.1
Li, Z.2
Cheng, J.3
Rao, Q.4
Gong, W.5
Liu, M.6
Shi, Y.G.7
Zhu, J.8
Wang, P.9
Xu, Y.10
-
28
-
-
84897989106
-
Tet and TDG mediate DNA demethylation essential for mesenchymal-to-epithelial transition in somatic cell reprogramming
-
Hu X., Zhang L, Mao SQ, Li Z, Chen J, Zhang RR, Wu HP, Gao J, Guo F., Liu W, et al. 2014. Tet and TDG mediate DNA demethylation essential for mesenchymal-to-epithelial transition in somatic cell reprogramming. Cell Stem Cell 14: 512-522.
-
(2014)
Cell Stem Cell
, vol.14
, pp. 512-522
-
-
Hu, X.1
Zhang, L.2
Mao, S.Q.3
Li, Z.4
Chen, J.5
Zhang, R.R.6
Wu, H.P.7
Gao, J.8
Guo, F.9
Liu, W.10
-
29
-
-
77956189495
-
Role of Tet proteins in 5mC to 5hmC conversion, EScell self-renewal and inner cell mass specification
-
Ito S., D'Alessio AC, Taranova OV, Hong K, Sowers LC, Zhang Y. 2010. Role of Tet proteins in 5mC to 5hmC conversion, EScell self-renewal and inner cell mass specification. Nature 466: 1129-1133.
-
(2010)
Nature
, vol.466
, pp. 1129-1133
-
-
Ito, S.1
D'Alessio, A.C.2
Taranova, O.V.3
Hong, K.4
Sowers, L.C.5
Zhang, Y.6
-
30
-
-
80052461558
-
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
-
Ito S., Shen L, Dai Q, Wu SC, Collins LB, Swenberg JA, He C, Zhang Y. 2011. Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science 333: 1300-1303.
-
(2011)
Science
, vol.333
, pp. 1300-1303
-
-
Ito, S.1
Shen, L.2
Dai, Q.3
Wu, S.C.4
Collins, L.B.5
Swenberg, J.A.6
He, C.7
Zhang, Y.8
-
31
-
-
77957139539
-
Mediator and cohesin connect gene expression and chromatin architecture
-
Kagey M.H., Newman JJ, Bilodeau S, Zhan Y, Orlando DA, van Berkum N.L., Ebmeier CC, Goossens J, Rahl PB, Levine SS, et al. 2010. Mediator and cohesin connect gene expression and chromatin architecture. Nature 467: 430-435.
-
(2010)
Nature
, vol.467
, pp. 430-435
-
-
Kagey, M.H.1
Newman, J.J.2
Bilodeau, S.3
Zhan, Y.4
Orlando, D.A.5
van Berkum, N.L.6
Ebmeier, C.C.7
Goossens, J.8
Rahl, P.B.9
Levine, S.S.10
-
32
-
-
84894589713
-
Interactome maps of mouse gene regulatory domains reveal basic principles of transcriptional regulation
-
Kieffer-Kwon K.R., Tang Z, Mathe E, Qian J, Sung MH, Li G, Resch W., Baek S, Pruett N, Grontved L, et al. 2013. Interactome maps of mouse gene regulatory domains reveal basic principles of transcriptional regulation. Cell 155: 1507- 1520.
-
(2013)
Cell
, vol.155
, pp. 1507-1520
-
-
Kieffer-Kwon, K.R.1
Tang, Z.2
Mathe, E.3
Qian, J.4
Sung, M.H.5
Li, G.6
Resch, W.7
Baek, S.8
Pruett, N.9
Grontved, L.10
-
33
-
-
32344450824
-
Genomic DNA methylation: The mark and its mediators
-
Klose R.J., 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
-
34
-
-
79551587102
-
Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells
-
Koh K.P., Yabuuchi A, Rao S, Huang Y, Cunniff K, Nardone J, Laiho A., Tahiliani M, Sommer CA, Mostoslavsky G, et al. 2011. Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells. Cell Stem Cell 8: 200-213.
-
(2011)
Cell Stem Cell
, vol.8
, pp. 200-213
-
-
Koh, K.P.1
Yabuuchi, A.2
Rao, S.3
Huang, Y.4
Cunniff, K.5
Nardone, J.6
Laiho, A.7
Tahiliani, M.8
Sommer, C.A.9
Mostoslavsky, G.10
-
35
-
-
55449105221
-
Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains
-
Ku M., Koche RP, Rheinbay E, Mendenhall EM, Endoh M, Mikkelsen T.S., Presser A, Nusbaum C, Xie X, Chi AS, et al. 2008. Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains. PLoS Genet 4: e1000242.
-
(2008)
PLoS Genet
, vol.4
-
-
Ku, M.1
Koche, R.P.2
Rheinbay, E.3
Mendenhall, E.M.4
Endoh, M.5
Mikkelsen, T.S.6
Presser, A.7
Nusbaum, C.8
Xie, X.9
Chi, A.S.10
-
36
-
-
36749034760
-
Telomere lengthening early in development
-
Liu L., Bailey SM, Okuka M, Munoz P, Li C, Zhou L, Wu C, Czerwiec E., Sandler L, Seyfang A, et al. 2007. Telomere lengthening early in development. Nat Cell Biol 9: 1436- 1441.
-
(2007)
Nat Cell Biol
, vol.9
, pp. 1436-1441
-
-
Liu, L.1
Bailey, S.M.2
Okuka, M.3
Munoz, P.4
Li, C.5
Zhou, L.6
Wu, C.7
Czerwiec, E.8
Sandler, L.9
Seyfang, A.10
-
37
-
-
79952614013
-
Endogenous retroviruses and neighboring genes are coordinately repressed by LSD1/KDM1A
-
Macfarlan T.S., Gifford WD, Agarwal S, Driscoll S, Lettieri K, Wang J., Andrews SE, Franco L, Rosenfeld MG, Ren B, et al. 2011. Endogenous retroviruses and neighboring genes are coordinately repressed by LSD1/KDM1A. Genes Dev 25: 594-607.
-
(2011)
Genes Dev
, vol.25
, pp. 594-607
-
-
McFarlan, T.S.1
Gifford, W.D.2
Agarwal, S.3
Driscoll, S.4
Lettieri, K.5
Wang, J.6
Andrews, S.E.7
Franco, L.8
Rosenfeld, M.G.9
Ren, B.10
-
38
-
-
84863458292
-
Embryonic stem cell potency fluctuates with endogenous retrovirus activity
-
Macfarlan T.S., Gifford WD, Driscoll S, Lettieri K, Rowe HM, Bonanomi D., Firth A, Singer O, Trono D, Pfaff SL. 2012. Embryonic stem cell potency fluctuates with endogenous retrovirus activity. Nature 487: 57-63.
-
(2012)
Nature
, vol.487
, pp. 57-63
-
-
McFarlan, T.S.1
Gifford, W.D.2
Driscoll, S.3
Lettieri, K.4
Rowe, H.M.5
Bonanomi, D.6
Firth, A.7
Singer, O.8
Trono, D.9
Pfaff, S.L.10
-
39
-
-
84878422484
-
Distinct roles of KAP1, HP1 and G9a/GLP in silencing of the two-cell-specific retrotransposon MERVL in mouse ES cells
-
Maksakova I.A., Thompson PJ, Goyal P, Jones SJ, Singh PB, Karimi M.M., Lorincz MC. 2013. Distinct roles of KAP1, HP1 and G9a/GLP in silencing of the two-cell-specific retrotransposon MERVL in mouse ES cells. Epigenetics Chromatin 6: 15.
-
(2013)
Epigenetics Chromatin
, vol.6
, pp. 15
-
-
Maksakova, I.A.1
Thompson, P.J.2
Goyal, P.3
Jones, S.J.4
Singh, P.B.5
Karimi, M.M.6
Lorincz, M.C.7
-
40
-
-
48449084118
-
Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells
-
Marson A., Levine SS, Cole MF, Frampton GM, Brambrink T, Johnstone S., Guenther MG, Johnston WK, Wernig M, Newman J., et al. 2008. Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells. Cell 134: 521-533.
-
(2008)
Cell
, vol.134
, pp. 521-533
-
-
Marson, A.1
Levine, S.S.2
Cole, M.F.3
Frampton, G.M.4
Brambrink, T.5
Johnstone, S.6
Guenther, M.G.7
Johnston, W.K.8
Wernig, M.9
Newman, J.10
-
41
-
-
49649125042
-
Genome-scale DNA methylation maps of pluripotent and differentiated cells
-
Meissner A., Mikkelsen TS, Gu H, Wernig M, Hanna J, Sivachenko A., Zhang X, Bernstein BE, Nusbaum C, Jaffe DB, et al. 2008. Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature 454: 766-770.
-
(2008)
Nature
, vol.454
, pp. 766-770
-
-
Meissner, A.1
Mikkelsen, T.S.2
Gu, H.3
Wernig, M.4
Hanna, J.5
Sivachenko, A.6
Zhang, X.7
Bernstein, B.E.8
Nusbaum, C.9
Jaffe, D.B.10
-
42
-
-
34547624303
-
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
-
Mikkelsen T.S., Ku M, Jaffe DB, Issac B, Lieberman E, Giannoukos G, Alvarez P, Brockman W, Kim TK, Koche RP, et al. 2007. Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature 448: 553-560.
-
(2007)
Nature
, vol.448
, pp. 553-560
-
-
Mikkelsen, T.S.1
Ku, M.2
Jaffe, D.B.3
Issac, B.4
Lieberman, E.5
Giannoukos, G.6
Alvarez, P.7
Brockman, W.8
Kim, T.K.9
Koche, R.P.10
-
43
-
-
45449114804
-
The colorful history of active DNA demethylation
-
Ooi S.K., Bestor TH. 2008. The colorful history of active DNA demethylation. Cell 133: 1145-1148.
-
(2008)
Cell
, vol.133
, pp. 1145-1148
-
-
Ooi, S.K.1
Bestor, T.H.2
-
44
-
-
84878260646
-
TETonic shift: Biological roles of TET proteins in DNA demethylation and transcription
-
Pastor W.A., Aravind L, Rao A. 2013. TETonic shift: biological roles of TET proteins in DNA demethylation and transcription. Nat Rev Mol Cell Biol 14: 341-356.
-
(2013)
Nat Rev Mol Cell Biol
, vol.14
, pp. 341-356
-
-
Pastor, W.A.1
Aravind, L.2
Rao, A.3
-
45
-
-
80555156105
-
In embryonic stem cells, ZFP57/KAP1 recognize amethylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions
-
Quenneville S., Verde G, Corsinotti A, Kapopoulou A, Jakobsson J, Offner S., Baglivo I, Pedone PV, Grimaldi G, Riccio A, et al. 2011. In embryonic stem cells, ZFP57/KAP1 recognize amethylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions. Mol Cell 44: 361-372.
-
(2011)
Mol Cell
, vol.44
, pp. 361-372
-
-
Quenneville, S.1
Verde, G.2
Corsinotti, A.3
Kapopoulou, A.4
Jakobsson, J.5
Offner, S.6
Baglivo, I.7
Pedone, P.V.8
Grimaldi, G.9
Riccio, A.10
-
46
-
-
79951516056
-
A unique chromatin signature uncovers early developmental enhancers in humans
-
Rada-Iglesias A., Bajpai R, Swigut T, Brugmann SA, Flynn RA, Wysocka J. 2011. A unique chromatin signature uncovers early developmental enhancers in humans. Nature 470: 279-283.
-
(2011)
Nature
, vol.470
, pp. 279-283
-
-
Rada-Iglesias, A.1
Bajpai, R.2
Swigut, T.3
Brugmann, S.A.4
Flynn, R.A.5
Wysocka, J.6
-
47
-
-
77951920690
-
c-Myc regulates transcriptional pause release
-
Rahl P.B., Lin CY, Seila AC, Flynn RA, McCuine S, Burge CB, Sharp P.A., Young RA. 2010. c-Myc regulates transcriptional pause release. Cell 141: 432-445.
-
(2010)
Cell
, vol.141
, pp. 432-445
-
-
Rahl, P.B.1
Lin, C.Y.2
Seila, A.C.3
Flynn, R.A.4
McCuine, S.5
Burge, C.B.6
Sharp, P.A.7
Young, R.A.8
-
48
-
-
39149130014
-
Stem cells and early lineage development
-
Rossant J. 2008. Stem cells and early lineage development. Cell 132: 527-531.
-
(2008)
Cell
, vol.132
, pp. 527-531
-
-
Rossant, J.1
-
49
-
-
74549116659
-
KAP1 controls endogenous retroviruses in embryonic stem cells
-
Rowe H.M., Jakobsson J, Mesnard D, Rougemont J, Reynard S, Aktas T., Maillard PV, Layard-Liesching H, Verp S, Marquis J, et al. 2010. KAP1 controls endogenous retroviruses in embryonic stem cells. Nature 463: 237-240.
-
(2010)
Nature
, vol.463
, pp. 237-240
-
-
Rowe, H.M.1
Jakobsson, J.2
Mesnard, D.3
Rougemont, J.4
Reynard, S.5
Aktas, T.6
Maillard, P.V.7
Layard-Liesching, H.8
Verp, S.9
Marquis, J.10
-
50
-
-
84874626481
-
TRIM28 repression of retrotransposon-based enhancers is necessary to preserve transcriptional dynamics in embryonic stem cells
-
Rowe H.M., Kapopoulou A, Corsinotti A, Fasching L, Macfarlan TS, Tarabay Y, Viville S, Jakobsson J, Pfaff SL, Trono D. 2013. TRIM28 repression of retrotransposon-based enhancers is necessary to preserve transcriptional dynamics in embryonic stem cells. Genome Res 23: 452-461.
-
(2013)
Genome Res
, vol.23
, pp. 452-461
-
-
Rowe, H.M.1
Kapopoulou, A.2
Corsinotti, A.3
Fasching, L.4
McFarlan, T.S.5
Tarabay, Y.6
Viville, S.7
Jakobsson, J.8
Pfaff, S.L.9
Trono, D.10
-
51
-
-
84864462544
-
A map of the cisregulatory sequences in the mouse genome
-
Shen Y., Yue F, McCleary DF, Ye Z, Edsall L, Kuan S, Wagner U, Dixon J., Lee L, Lobanenkov VV, et al. 2012. A map of the cisregulatory sequences in the mouse genome. Nature 488: 116-120.
-
(2012)
Nature
, vol.488
, pp. 116-120
-
-
Shen, Y.1
Yue, F.2
McCleary, D.F.3
Ye, Z.4
Edsall, L.5
Kuan, S.6
Wagner, U.7
Dixon, J.8
Lee, L.9
Lobanenkov, V.V.10
-
52
-
-
84876946045
-
Genome-wide analysis reveals TETand TDG-dependent 5-methylcytosine oxidation dynamics
-
Shen L., Wu H, Diep D, Yamaguchi S, D'Alessio AC, Fung HL, Zhang K., Zhang Y. 2013. Genome-wide analysis reveals TETand TDG-dependent 5-methylcytosine oxidation dynamics. Cell 153: 692-706.
-
(2013)
Cell
, vol.153
, pp. 692-706
-
-
Shen, L.1
Wu, H.2
Diep, D.3
Yamaguchi, S.4
D'Alessio, A.C.5
Fung, H.L.6
Zhang, K.7
Zhang, Y.8
-
53
-
-
39149122855
-
Capturing pluripotency
-
Silva J., Smith A. 2008. Capturing pluripotency. Cell 132: 532- 536.
-
(2008)
Cell
, vol.132
, pp. 532-536
-
-
Silva, J.1
Smith, A.2
-
54
-
-
84891904054
-
A reference methylome database and analysis pipeline to facilitate integrative and comparative epigenomics
-
Song Q., Decato B, Hong EE, Zhou M, Fang F, Qu J, Garvin T, Kessler M., Zhou J, Smith AD. 2013. A reference methylome database and analysis pipeline to facilitate integrative and comparative epigenomics. PLoS ONE 8: e81148.
-
(2013)
PLoS ONE
, vol.8
-
-
Song, Q.1
Decato, B.2
Hong, E.E.3
Zhou, M.4
Fang, F.5
Qu, J.6
Garvin, T.7
Kessler, M.8
Zhou, J.9
Smith, A.D.10
-
55
-
-
84355163093
-
DNA-binding factors shape the mouse methylome at distal regulatory regions
-
Stadler M.B., Murr R, Burger L, Ivanek R, Lienert F, Scholer A, van Nimwegen E., Wirbelauer C, Oakeley EJ, Gaidatzis D, et al. 2011. DNA-binding factors shape the mouse methylome at distal regulatory regions. Nature 480: 490-495.
-
(2011)
Nature
, vol.480
, pp. 490-495
-
-
Stadler, M.B.1
Murr, R.2
Burger, L.3
Ivanek, R.4
Lienert, F.5
Scholer, A.6
van Nimwegen, E.7
Wirbelauer, C.8
Oakeley, E.J.9
Gaidatzis, D.10
-
56
-
-
66149146320
-
Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1
-
Tahiliani M., Koh KP, Shen Y, PastorWA, Bandukwala H, Brudno Y, Agarwal S, Iyer LM, Liu DR, Aravind L, et al. 2009. Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science 324: 930-935.
-
(2009)
Science
, vol.324
, pp. 930-935
-
-
Tahiliani, M.1
Koh, K.P.2
Shen, Y.3
Pastor, W.A.4
Bandukwala, H.5
Brudno, Y.6
Agarwal, S.7
Iyer, L.M.8
Liu, D.R.9
Aravind, L.10
-
57
-
-
84860749868
-
Tet family proteins and 5-hydroxymethylcytosine in development and disease
-
Tan L., Shi YG. 2012. Tet family proteins and 5-hydroxymethylcytosine in development and disease. Development 139: 1895-1902.
-
(2012)
Development
, vol.139
, pp. 1895-1902
-
-
Tan, L.1
Shi, Y.G.2
-
58
-
-
84877707375
-
One-step generation of mice carrying mutations in multiple genes by CRISPR/Cas-mediated genome engineering
-
Wang H., Yang H, Shivalila CS, Dawlaty MM, Cheng AW, Zhang F, Jaenisch R. 2013. One-step generation of mice carrying mutations in multiple genes by CRISPR/Cas-mediated genome engineering. Cell 153: 910-918.
-
(2013)
Cell
, vol.153
, pp. 910-918
-
-
Wang, H.1
Yang, H.2
Shivalila, C.S.3
Dawlaty, M.M.4
Cheng, A.W.5
Zhang, F.6
Jaenisch, R.7
-
59
-
-
84856962477
-
Enhancer decommissioning by LSD1 during embryonic stem cell differentiation
-
Whyte W.A., Bilodeau S, Orlando DA, Hoke HA, Frampton GM, Foster C.T., Cowley SM, Young RA. 2012. Enhancer decommissioning by LSD1 during embryonic stem cell differentiation. Nature 482: 221-225.
-
(2012)
Nature
, vol.482
, pp. 221-225
-
-
Whyte, W.A.1
Bilodeau, S.2
Orlando, D.A.3
Hoke, H.A.4
Frampton, G.M.5
Foster, C.T.6
Cowley, S.M.7
Young, R.A.8
-
60
-
-
73349091839
-
Chromosome orientation fluorescence in situ hybridization (CO-FISH)
-
pdb prot5269
-
Williams E.S., Bailey SM. 2009. Chromosome orientation fluorescence in situ hybridization (CO-FISH). Cold Spring Harb Protoc 2009: pdb prot5269.
-
(2009)
Cold Spring Harb Protoc 2009
-
-
Williams, E.S.1
Bailey, S.M.2
-
61
-
-
79956302047
-
TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity
-
Williams K., Christensen J, Pedersen MT, Johansen JV, Cloos PA, Rappsilber J., Helin K. 2011. TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity. Nature 473: 343-348.
-
(2011)
Nature
, vol.473
, pp. 343-348
-
-
Williams, K.1
Christensen, J.2
Pedersen, M.T.3
Johansen, J.V.4
Cloos, P.A.5
Rappsilber, J.6
Helin, K.7
-
62
-
-
77956095231
-
Active DNA demethylation: Many roads lead to Rome
-
Wu S.C., Zhang Y. 2010. Active DNA demethylation: many roads lead to Rome. Nat Rev Mol Cell Biol 11: 607-620.
-
(2010)
Nat Rev Mol Cell Biol
, vol.11
, pp. 607-620
-
-
Wu, S.C.1
Zhang, Y.2
-
63
-
-
84892763878
-
Reversing DNA methylation: Mechanisms, genomics, and biological functions
-
Wu H., Zhang Y. 2014. Reversing DNA methylation: mechanisms, genomics, and biological functions. Cell 156: 45-68.
-
(2014)
Cell
, vol.156
, pp. 45-68
-
-
Wu, H.1
Zhang, Y.2
-
64
-
-
77954842322
-
Dnmt3a-dependent nonpromoter DNA methylation facilitates transcription of neurogenic genes
-
Wu H., Coskun V, Tao J, Xie W, Ge W, Yoshikawa K, Li E, Zhang Y, Sun YE. 2010. Dnmt3a-dependent nonpromoter DNA methylation facilitates transcription of neurogenic genes. Science 329: 444-448.
-
(2010)
Science
, vol.329
, pp. 444-448
-
-
Wu, H.1
Coskun, V.2
Tao, J.3
Xie, W.4
Ge, W.5
Yoshikawa, K.6
Li, E.7
Zhang, Y.8
Sun, Y.E.9
-
65
-
-
79956292024
-
Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells
-
Wu H., D'Alessio AC, Ito S, Xia K, Wang Z, Cui K, Zhao K, Sun YE, Zhang Y. 2011. Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells. Nature 473: 389-393.
-
(2011)
Nature
, vol.473
, pp. 389-393
-
-
Wu, H.1
D'Alessio, A.C.2
Ito, S.3
Xia, K.4
Wang, Z.5
Cui, K.6
Zhao, K.7
Sun, Y.E.8
Zhang, Y.9
-
66
-
-
84875799835
-
Fbxl10/Kdm2b recruits polycomb repressive complex 1 to CpG islands and regulates H2A ubiquitylation
-
Wu X., Johansen JV, Helin K. 2013. Fbxl10/Kdm2b recruits polycomb repressive complex 1 to CpG islands and regulates H2A ubiquitylation. Mol Cell 49: 1134-1146.
-
(2013)
Mol Cell
, vol.49
, pp. 1134-1146
-
-
Wu, X.1
Johansen, J.V.2
Helin, K.3
-
67
-
-
79955948324
-
Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells
-
Xu Y., Wu F, Tan L, Kong L, Xiong L, Deng J, Barbera AJ, Zheng L, Zhang H., Huang S, et al. 2011. Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells. Mol Cell 42: 451-464.
-
(2011)
Mol Cell
, vol.42
, pp. 451-464
-
-
Xu, Y.1
Wu, F.2
Tan, L.3
Kong, L.4
Xiong, L.5
Deng, J.6
Barbera, A.J.7
Zheng, L.8
Zhang, H.9
Huang, S.10
-
68
-
-
84883134780
-
Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing
-
Xue Z., Huang K, Cai C, Cai L, Jiang CY, Feng Y, Liu Z, Zeng Q, Cheng L., Sun YE, et al. 2013. Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing. Nature 500: 593-597.
-
(2013)
Nature
, vol.500
, pp. 593-597
-
-
Xue, Z.1
Huang, K.2
Cai, C.3
Cai, L.4
Jiang, C.Y.5
Feng, Y.6
Liu, Z.7
Zeng, Q.8
Cheng, L.9
Sun, Y.E.10
-
69
-
-
84861990517
-
Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome
-
Yu M., Hon GC, Szulwach KE, Song CX, Zhang L, Kim A, Li X, Dai Q., Shen Y, Park B, et al. 2012. Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome. Cell 149: 1368-1380.
-
(2012)
Cell
, vol.149
, pp. 1368-1380
-
-
Yu, M.1
Hon, G.C.2
Szulwach, K.E.3
Song, C.X.4
Zhang, L.5
Kim, A.6
Li, X.7
Dai, Q.8
Shen, Y.9
Park, B.10
-
70
-
-
77950866324
-
Zscan4 regulates telomere elongation and genomic stability in ES cells
-
Zalzman M., Falco G, Sharova LV, Nishiyama A, Thomas M, Lee SL, Stagg CA, Hoang HG, Yang HT, Indig FE, et al. 2010. Zscan4 regulates telomere elongation and genomic stability in ES cells. Nature 464: 858-863.
-
(2010)
Nature
, vol.464
, pp. 858-863
-
-
Zalzman, M.1
Falco, G.2
Sharova, L.V.3
Nishiyama, A.4
Thomas, M.5
Lee, S.L.6
Stagg, C.A.7
Hoang, H.G.8
Yang, H.T.9
Indig, F.E.10
-
71
-
-
84882884517
-
Charting a dynamic DNAmethylation landscape of the human genome
-
ZillerMJ, Gu H, Muller F, Donaghey J, Tsai LT, KohlbacherO,De Jager P.L., Rosen ED, Bennett DA, Bernstein BE, et al. 2013. Charting a dynamic DNAmethylation landscape of the human genome. Nature 500: 477-481.
-
(2013)
Nature
, vol.500
, pp. 477-481
-
-
Ziller, M.J.1
Gu, H.2
Muller, F.3
Donaghey, J.4
Tsai, L.T.5
Kohlbacher, O.6
De Jager, P.L.7
Rosen, E.D.8
Bennett, D.A.9
Bernstein, B.E.10
|