-
1
-
-
0032830639
-
Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2
-
R.E. Amir, I.B. Van den Veyver, M. Wan, C.Q. Tran, U. Francke, and H.Y. Zoghbi Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2 Nat. Genet. 23 1999 185 188
-
(1999)
Nat. Genet.
, vol.23
, pp. 185-188
-
-
Amir, R.E.1
Van Den Veyver, I.B.2
Wan, M.3
Tran, C.Q.4
Francke, U.5
Zoghbi, H.Y.6
-
2
-
-
34250192881
-
Generation of a defined and uniform population of CNS progenitors and neurons from mouse embryonic stem cells
-
M. Bibel, J. Richter, E. Lacroix, and Y.-A. Barde Generation of a defined and uniform population of CNS progenitors and neurons from mouse embryonic stem cells Nat. Protoc. 2 2007 1034 1043
-
(2007)
Nat. Protoc.
, vol.2
, pp. 1034-1043
-
-
Bibel, M.1
Richter, J.2
Lacroix, E.3
Barde, Y.-A.4
-
3
-
-
0034634549
-
The minimal repression domain of MBD2b overlaps with the methyl-CpG-binding domain and binds directly to Sin3A
-
J. Boeke, O. Ammerpohl, S. Kegel, U. Moehren, and R. Renkawitz The minimal repression domain of MBD2b overlaps with the methyl-CpG-binding domain and binds directly to Sin3A J. Biol. Chem. 275 2000 34963 34967
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 34963-34967
-
-
Boeke, J.1
Ammerpohl, O.2
Kegel, S.3
Moehren, U.4
Renkawitz, R.5
-
4
-
-
0026583975
-
Repression of genes by DNA methylation depends on CpG density and promoter strength: Evidence for involvement of a methyl-CpG binding protein
-
J. Boyes, and A. Bird Repression of genes by DNA methylation depends on CpG density and promoter strength: evidence for involvement of a methyl-CpG binding protein EMBO J. 11 1992 327 333
-
(1992)
EMBO J.
, vol.11
, pp. 327-333
-
-
Boyes, J.1
Bird, A.2
-
5
-
-
45849105557
-
MeCP2, a key contributor to neurological disease, activates and represses transcription
-
M. Chahrour, S.Y. Jung, C. Shaw, X. Zhou, S.T.C. Wong, J. Qin, and H.Y. Zoghbi MeCP2, a key contributor to neurological disease, activates and represses transcription Science 320 2008 1224 1229
-
(2008)
Science
, vol.320
, pp. 1224-1229
-
-
Chahrour, M.1
Jung, S.Y.2
Shaw, C.3
Zhou, X.4
Wong, S.T.C.5
Qin, J.6
Zoghbi, H.Y.7
-
6
-
-
40749109894
-
Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning
-
S.J. Cokus, S. Feng, X. Zhang, Z. Chen, B. Merriman, C.D. Haudenschild, S. Pradhan, S.F. Nelson, M. Pellegrini, and S.E. Jacobsen Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning Nature 452 2008 215 219
-
(2008)
Nature
, vol.452
, pp. 215-219
-
-
Cokus, S.J.1
Feng, S.2
Zhang, X.3
Chen, Z.4
Merriman, B.5
Haudenschild, C.D.6
Pradhan, S.7
Nelson, S.F.8
Pellegrini, M.9
Jacobsen, S.E.10
-
7
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
ENCODE Project Consortium
-
I. Dunham, A. Kundaje, S.F. Aldred, P.J. Collins, C.A. Davis, F. Doyle, C.B. Epstein, S. Frietze, J. Harrow, R. Kaul ENCODE Project Consortium An integrated encyclopedia of DNA elements in the human genome Nature 489 2012 57 74
-
(2012)
Nature
, vol.489
, pp. 57-74
-
-
Dunham, I.1
Kundaje, A.2
Aldred, S.F.3
Collins, P.J.4
Davis, C.A.5
Doyle, F.6
Epstein, C.B.7
Frietze, S.8
Harrow, J.9
Kaul, R.10
-
8
-
-
79551635700
-
Different binding properties and function of CXXC zinc finger domains in Dnmt1 and Tet1
-
C. Frauer, A. Rottach, D. Meilinger, S. Bultmann, K. Fellinger, S. Hasenöder, M. Wang, W. Qin, J. Söding, F. Spada, and H. Leonhardt Different binding properties and function of CXXC zinc finger domains in Dnmt1 and Tet1 PLoS ONE 6 2011 e16627
-
(2011)
PLoS ONE
, vol.6
, pp. 16627
-
-
Frauer, C.1
Rottach, A.2
Meilinger, D.3
Bultmann, S.4
Fellinger, K.5
Hasenöder, S.6
Wang, M.7
Qin, W.8
Söding, J.9
Spada, F.10
Leonhardt, H.11
-
9
-
-
0035793540
-
DNA recognition by the methyl-CpG binding domain of MeCP2
-
A. Free, R.I. Wakefield, B.O. Smith, D.T. Dryden, P.N. Barlow, and A.P. Bird DNA recognition by the methyl-CpG binding domain of MeCP2 J. Biol. Chem. 276 2001 3353 3360
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 3353-3360
-
-
Free, A.1
Wakefield, R.I.2
Smith, B.O.3
Dryden, D.T.4
Barlow, P.N.5
Bird, A.P.6
-
10
-
-
84860221291
-
Recognition and potential mechanisms for replication and erasure of cytosine hydroxymethylation
-
H. Hashimoto, Y. Liu, A.K. Upadhyay, Y. Chang, S.B. Howerton, P.M. Vertino, X. Zhang, and X. Cheng Recognition and potential mechanisms for replication and erasure of cytosine hydroxymethylation Nucleic Acids Res. 40 2012 4841 4849
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 4841-4849
-
-
Hashimoto, H.1
Liu, Y.2
Upadhyay, A.K.3
Chang, Y.4
Howerton, S.B.5
Vertino, P.M.6
Zhang, X.7
Cheng, X.8
-
11
-
-
65549104157
-
Histone modifications at human enhancers reflect global cell-type-specific gene expression
-
N.D. Heintzman, G.C. Hon, R.D. Hawkins, P. Kheradpour, A. Stark, L.F. Harp, Z. Ye, L.K. Lee, R.K. Stuart, and C.W. Ching Histone modifications at human enhancers reflect global cell-type-specific gene expression Nature 459 2009 108 112
-
(2009)
Nature
, vol.459
, pp. 108-112
-
-
Heintzman, N.D.1
Hon, G.C.2
Hawkins, R.D.3
Kheradpour, P.4
Stark, A.5
Harp, L.F.6
Ye, Z.7
Lee, L.K.8
Stuart, R.K.9
Ching, C.W.10
-
12
-
-
0031792779
-
Identification and characterization of a family of mammalian methyl-CpG binding proteins
-
B. Hendrich, and A. Bird Identification and characterization of a family of mammalian methyl-CpG binding proteins Mol. Cell. Biol. 18 1998 6538 6547
-
(1998)
Mol. Cell. Biol.
, vol.18
, pp. 6538-6547
-
-
Hendrich, B.1
Bird, A.2
-
13
-
-
0035868824
-
Closely related proteins MBD2 and MBD3 play distinctive but interacting roles in mouse development
-
B. Hendrich, J. Guy, B. Ramsahoye, V.A. Wilson, and A. Bird Closely related proteins MBD2 and MBD3 play distinctive but interacting roles in mouse development Genes Dev. 15 2001 710 723
-
(2001)
Genes Dev.
, vol.15
, pp. 710-723
-
-
Hendrich, B.1
Guy, J.2
Ramsahoye, B.3
Wilson, V.A.4
Bird, A.5
-
14
-
-
77954362183
-
Examination of the specificity of DNA methylation profiling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine
-
S.-G. Jin, S. Kadam, and G.P. Pfeifer Examination of the specificity of DNA methylation profiling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine Nucleic Acids Res. 38 2010 e125
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 125
-
-
Jin, S.-G.1
Kadam, S.2
Pfeifer, G.P.3
-
15
-
-
1842505317
-
Mbd1 is recruited to both methylated and nonmethylated CpGs via distinct DNA binding domains
-
H.F. Jørgensen, I. Ben-Porath, and A.P. Bird Mbd1 is recruited to both methylated and nonmethylated CpGs via distinct DNA binding domains Mol. Cell. Biol. 24 2004 3387 3395
-
(2004)
Mol. Cell. Biol.
, vol.24
, pp. 3387-3395
-
-
Jørgensen, H.F.1
Ben-Porath, I.2
Bird, A.P.3
-
16
-
-
62749132272
-
Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing
-
P. Lefrançois, G.M. Euskirchen, R.K. Auerbach, J. Rozowsky, T. Gibson, C.M. Yellman, M. Gerstein, and M. Snyder Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing BMC Genomics 10 2009 37
-
(2009)
BMC Genomics
, vol.10
, pp. 37
-
-
Lefrançois, P.1
Euskirchen, G.M.2
Auerbach, R.K.3
Rozowsky, J.4
Gibson, T.5
Yellman, C.M.6
Gerstein, M.7
Snyder, M.8
-
17
-
-
0026747761
-
Purification, sequence, and cellular localization of a novel chromosomal protein that binds to methylated DNA
-
J.D. Lewis, R.R. Meehan, W.J. Henzel, I. Maurer-Fogy, P. Jeppesen, F. Klein, and A. Bird Purification, sequence, and cellular localization of a novel chromosomal protein that binds to methylated DNA Cell 69 1992 905 914
-
(1992)
Cell
, vol.69
, pp. 905-914
-
-
Lewis, J.D.1
Meehan, R.R.2
Henzel, W.J.3
Maurer-Fogy, I.4
Jeppesen, P.5
Klein, F.6
Bird, A.7
-
18
-
-
80054994283
-
Identification of genetic elements that autonomously determine DNA methylation states
-
F. Lienert, C. Wirbelauer, I. Som, A. Dean, F. Mohn, and D. Schübeler Identification of genetic elements that autonomously determine DNA methylation states Nat. Genet. 43 2011 1091 1097
-
(2011)
Nat. Genet.
, vol.43
, pp. 1091-1097
-
-
Lienert, F.1
Wirbelauer, C.2
Som, I.3
Dean, A.4
Mohn, F.5
Schübeler, D.6
-
19
-
-
70450217879
-
Human DNA methylomes at base resolution show widespread epigenomic differences
-
R. Lister, M. Pelizzola, R.H. Dowen, R.D. Hawkins, G. Hon, J. Tonti-Filippini, J.R. Nery, L. Lee, Z. Ye, and Q.-M. Ngo Human DNA methylomes at base resolution show widespread epigenomic differences Nature 462 2009 315 322
-
(2009)
Nature
, vol.462
, pp. 315-322
-
-
Lister, R.1
Pelizzola, M.2
Dowen, R.H.3
Hawkins, R.D.4
Hon, G.5
Tonti-Filippini, J.6
Nery, J.R.7
Lee, L.8
Ye, Z.9
Ngo, Q.-M.10
-
20
-
-
59849121326
-
The methyl-CpG binding proteins Mecp2, Mbd2 and Kaiso are dispensable for mouse embryogenesis, but play a redundant function in neural differentiation
-
I. Martín Caballero, J. Hansen, D. Leaford, S. Pollard, and B.D. Hendrich The methyl-CpG binding proteins Mecp2, Mbd2 and Kaiso are dispensable for mouse embryogenesis, but play a redundant function in neural differentiation PLoS ONE 4 2009 e4315
-
(2009)
PLoS ONE
, vol.4
, pp. 4315
-
-
Martín Caballero, I.1
Hansen, J.2
Leaford, D.3
Pollard, S.4
Hendrich, B.D.5
-
21
-
-
0024342686
-
Identification of a mammalian protein that binds specifically to DNA containing methylated CpGs
-
R.R. Meehan, J.D. Lewis, S. McKay, E.L. Kleiner, and A.P. Bird Identification of a mammalian protein that binds specifically to DNA containing methylated CpGs Cell 58 1989 499 507
-
(1989)
Cell
, vol.58
, pp. 499-507
-
-
Meehan, R.R.1
Lewis, J.D.2
McKay, S.3
Kleiner, E.L.4
Bird, A.P.5
-
22
-
-
84871563384
-
MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system
-
M. Mellén, P. Ayata, S. Dewell, S. Kriaucionis, and N. Heintz MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system Cell 151 2012 1417 1430
-
(2012)
Cell
, vol.151
, pp. 1417-1430
-
-
Mellén, M.1
Ayata, P.2
Dewell, S.3
Kriaucionis, S.4
Heintz, N.5
-
23
-
-
51649129596
-
Lineage-specific polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors
-
F. Mohn, M. Weber, M. Rebhan, T.C. Roloff, J. Richter, M.B. Stadler, M. Bibel, and D. Schübeler Lineage-specific polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors Mol. Cell 30 2008 755 766
-
(2008)
Mol. Cell
, vol.30
, pp. 755-766
-
-
Mohn, F.1
Weber, M.2
Rebhan, M.3
Roloff, T.C.4
Richter, J.5
Stadler, M.B.6
Bibel, M.7
Schübeler, D.8
-
24
-
-
0342437491
-
MeCP2 is a transcriptional repressor with abundant binding sites in genomic chromatin
-
X. Nan, F.J. Campoy, and A. Bird MeCP2 is a transcriptional repressor with abundant binding sites in genomic chromatin Cell 88 1997 471 481
-
(1997)
Cell
, vol.88
, pp. 471-481
-
-
Nan, X.1
Campoy, F.J.2
Bird, A.3
-
25
-
-
0032574977
-
Transcriptional repression by the methyl-CpG-binding protein MeCP2 involves a histone deacetylase complex
-
X. Nan, H.H. Ng, C.A. Johnson, C.D. Laherty, B.M. Turner, R.N. Eisenman, and A. Bird Transcriptional repression by the methyl-CpG-binding protein MeCP2 involves a histone deacetylase complex Nature 393 1998 386 389
-
(1998)
Nature
, vol.393
, pp. 386-389
-
-
Nan, X.1
Ng, H.H.2
Johnson, C.A.3
Laherty, C.D.4
Turner, B.M.5
Eisenman, R.N.6
Bird, A.7
-
26
-
-
0032871399
-
MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex
-
H.H. Ng, Y. Zhang, B. Hendrich, C.A. Johnson, B.M. Turner, H. Erdjument-Bromage, P. Tempst, D. Reinberg, and A. Bird MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex Nat. Genet. 23 1999 58 61
-
(1999)
Nat. Genet.
, vol.23
, pp. 58-61
-
-
Ng, H.H.1
Zhang, Y.2
Hendrich, B.3
Johnson, C.A.4
Turner, B.M.5
Erdjument-Bromage, H.6
Tempst, P.7
Reinberg, D.8
Bird, A.9
-
27
-
-
0035906936
-
Solution structure of the methyl-CpG binding domain of human MBD1 in complex with methylated DNA
-
I. Ohki, N. Shimotake, N. Fujita, J. Jee, T. Ikegami, M. Nakao, and M. Shirakawa Solution structure of the methyl-CpG binding domain of human MBD1 in complex with methylated DNA Cell 105 2001 487 497
-
(2001)
Cell
, vol.105
, pp. 487-497
-
-
Ohki, I.1
Shimotake, N.2
Fujita, N.3
Jee, J.4
Ikegami, T.5
Nakao, M.6
Shirakawa, M.7
-
28
-
-
79956308473
-
Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells
-
W.A. Pastor, U.J. Pape, Y. Huang, H.R. Henderson, R. Lister, M. Ko, E.M. McLoughlin, Y. Brudno, S. Mahapatra, and P. Kapranov Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells Nature 473 2011 394 397
-
(2011)
Nature
, vol.473
, pp. 394-397
-
-
Pastor, W.A.1
Pape, U.J.2
Huang, Y.3
Henderson, H.R.4
Lister, R.5
Ko, M.6
McLoughlin, E.M.7
Brudno, Y.8
Mahapatra, S.9
Kapranov, P.10
-
29
-
-
84860647928
-
NuRD suppresses pluripotency gene expression to promote transcriptional heterogeneity and lineage commitment
-
N. Reynolds, P. Latos, A. Hynes-Allen, R. Loos, D. Leaford, A. O'Shaughnessy, O. Mosaku, J. Signolet, P. Brennecke, and T. Kalkan NuRD suppresses pluripotency gene expression to promote transcriptional heterogeneity and lineage commitment Cell Stem Cell 10 2012 583 594
-
(2012)
Cell Stem Cell
, vol.10
, pp. 583-594
-
-
Reynolds, N.1
Latos, P.2
Hynes-Allen, A.3
Loos, R.4
Leaford, D.5
O'Shaughnessy, A.6
Mosaku, O.7
Signolet, J.8
Brennecke, P.9
Kalkan, T.10
-
30
-
-
0037144441
-
The mCpG-binding domain of human MBD3 does not bind to mCpG but interacts with NuRD/Mi2 components HDAC1 and MTA2
-
M. Saito, and F. Ishikawa The mCpG-binding domain of human MBD3 does not bind to mCpG but interacts with NuRD/Mi2 components HDAC1 and MTA2 J. Biol. Chem. 277 2002 35434 35439
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 35434-35439
-
-
Saito, M.1
Ishikawa, F.2
-
31
-
-
4344685735
-
Methyl-CpG binding protein MBD1 couples histone H3 methylation at lysine 9 by SETDB1 to DNA replication and chromatin assembly
-
S.A. Sarraf, and I. Stancheva Methyl-CpG binding protein MBD1 couples histone H3 methylation at lysine 9 by SETDB1 to DNA replication and chromatin assembly Mol. Cell 15 2004 595 605
-
(2004)
Mol. Cell
, vol.15
, pp. 595-605
-
-
Sarraf, S.A.1
Stancheva, I.2
-
32
-
-
80052016907
-
Solution structure and dynamic analysis of chicken MBD2 methyl binding domain bound to a target-methylated DNA sequence
-
J.N. Scarsdale, H.D. Webb, G.D. Ginder, and D.C. Williams Jr. Solution structure and dynamic analysis of chicken MBD2 methyl binding domain bound to a target-methylated DNA sequence Nucleic Acids Res. 39 2011 6741 6752
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 6741-6752
-
-
Scarsdale, J.N.1
Webb, H.D.2
Ginder, G.D.3
Williams Jr., D.C.4
-
33
-
-
84990251443
-
A temporal threshold for formaldehyde crosslinking and fixation
-
L. Schmiedeberg, P. Skene, A. Deaton, and A. Bird A temporal threshold for formaldehyde crosslinking and fixation PLoS ONE 4 2009 e4636
-
(2009)
PLoS ONE
, vol.4
, pp. 4636
-
-
Schmiedeberg, L.1
Skene, P.2
Deaton, A.3
Bird, A.4
-
34
-
-
76849094693
-
Neuronal MeCP2 is expressed at near histone-octamer levels and globally alters the chromatin state
-
P.J. Skene, R.S. Illingworth, S. Webb, A.R.W. Kerr, K.D. James, D.J. Turner, R. Andrews, and A.P. Bird Neuronal MeCP2 is expressed at near histone-octamer levels and globally alters the chromatin state Mol. Cell 37 2010 457 468
-
(2010)
Mol. Cell
, vol.37
, pp. 457-468
-
-
Skene, P.J.1
Illingworth, R.S.2
Webb, S.3
Kerr, A.R.W.4
James, K.D.5
Turner, D.J.6
Andrews, R.7
Bird, A.P.8
-
35
-
-
84874771985
-
Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives
-
C.G. Spruijt, F. Gnerlich, A.H. Smits, T. Pfaffeneder, P.W. Jansen, C. Bauer, M. Münzel, M. Wagner, M. Müller, and F. Khan Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives Cell 152 2013 1146 1159
-
(2013)
Cell
, vol.152
, pp. 1146-1159
-
-
Spruijt, C.G.1
Gnerlich, F.2
Smits, A.H.3
Pfaffeneder, T.4
Jansen, P.W.5
Bauer, C.6
Münzel, M.7
Wagner, M.8
Müller, M.9
Khan, F.10
-
36
-
-
84355163093
-
DNA-binding factors shape the mouse methylome at distal regulatory regions
-
M.B. Stadler, R. Murr, L. Burger, R. Ivanek, F. Lienert, A. Schöler, E. van Nimwegen, C. Wirbelauer, E.J. Oakeley, and D. Gaidatzis DNA-binding factors shape the mouse methylome at distal regulatory regions Nature 480 2011 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
Schöler, A.6
Van Nimwegen, E.7
Wirbelauer, C.8
Oakeley, E.J.9
Gaidatzis, D.10
-
37
-
-
33745270104
-
Maintenance of self-renewal ability of mouse embryonic stem cells in the absence of DNA methyltransferases Dnmt1, Dnmt3a and Dnmt3b
-
A. Tsumura, T. Hayakawa, Y. Kumaki, S.-I. Takebayashi, M. Sakaue, C. Matsuoka, K. Shimotohno, F. Ishikawa, E. Li, and H.R. Ueda Maintenance of self-renewal ability of mouse embryonic stem cells in the absence of DNA methyltransferases Dnmt1, Dnmt3a and Dnmt3b Genes Cells 11 2006 805 814
-
(2006)
Genes Cells
, vol.11
, pp. 805-814
-
-
Tsumura, A.1
Hayakawa, T.2
Kumaki, Y.3
Takebayashi, S.-I.4
Sakaue, M.5
Matsuoka, C.6
Shimotohno, K.7
Ishikawa, F.8
Li, E.9
Ueda, H.R.10
-
38
-
-
0037180492
-
Transcriptional profiling of a mouse model for Rett syndrome reveals subtle transcriptional changes in the brain
-
M. Tudor, S. Akbarian, R.Z. Chen, and R. Jaenisch Transcriptional profiling of a mouse model for Rett syndrome reveals subtle transcriptional changes in the brain Proc. Natl. Acad. Sci. USA 99 2002 15536 15541
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 15536-15541
-
-
Tudor, M.1
Akbarian, S.2
Chen, R.Z.3
Jaenisch, R.4
-
39
-
-
79956302047
-
TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity
-
K. Williams, J. Christensen, M.T. Pedersen, J.V. Johansen, P.A.C. Cloos, J. Rappsilber, and K. Helin TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity Nature 473 2011 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.C.5
Rappsilber, J.6
Helin, K.7
-
40
-
-
37649022627
-
Integrated epigenomic analyses of neuronal MeCP2 reveal a role for long-range interaction with active genes
-
D.H. Yasui, S. Peddada, M.C. Bieda, R.O. Vallero, A. Hogart, R.P. Nagarajan, K.N. Thatcher, P.J. Farnham, and J.M. Lasalle Integrated epigenomic analyses of neuronal MeCP2 reveal a role for long-range interaction with active genes Proc. Natl. Acad. Sci. USA 104 2007 19416 19421
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 19416-19421
-
-
Yasui, D.H.1
Peddada, S.2
Bieda, M.C.3
Vallero, R.O.4
Hogart, A.5
Nagarajan, R.P.6
Thatcher, K.N.7
Farnham, P.J.8
Lasalle, J.M.9
-
41
-
-
84455167621
-
Mbd3/NURD complex regulates expression of 5-hydroxymethylcytosine marked genes in embryonic stem cells
-
O. Yildirim, R. Li, J.-H. Hung, P.B. Chen, X. Dong, L.-S. Ee, Z. Weng, O.J. Rando, and T.G. Fazzio Mbd3/NURD complex regulates expression of 5-hydroxymethylcytosine marked genes in embryonic stem cells Cell 147 2011 1498 1510
-
(2011)
Cell
, vol.147
, pp. 1498-1510
-
-
Yildirim, O.1
Li, R.2
Hung, J.-H.3
Chen, P.B.4
Dong, X.5
Ee, L.-S.6
Weng, Z.7
Rando, O.J.8
Fazzio, T.G.9
-
42
-
-
29144447632
-
Regulation of RNA splicing by the methylation-dependent transcriptional repressor methyl-CpG binding protein 2
-
J.I. Young, E.P. Hong, J.C. Castle, J. Crespo-Barreto, A.B. Bowman, M.F. Rose, D. Kang, R. Richman, J.M. Johnson, S. Berget, and H.Y. Zoghbi Regulation of RNA splicing by the methylation-dependent transcriptional repressor methyl-CpG binding protein 2 Proc. Natl. Acad. Sci. USA 102 2005 17551 17558
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 17551-17558
-
-
Young, J.I.1
Hong, E.P.2
Castle, J.C.3
Crespo-Barreto, J.4
Bowman, A.B.5
Rose, M.F.6
Kang, D.7
Richman, R.8
Johnson, J.M.9
Berget, S.10
Zoghbi, H.Y.11
-
43
-
-
0033180082
-
Analysis of the NuRD subunits reveals a histone deacetylase core complex and a connection with DNA methylation
-
Y. Zhang, H.H. Ng, H. Erdjument-Bromage, P. Tempst, A. Bird, and D. Reinberg Analysis of the NuRD subunits reveals a histone deacetylase core complex and a connection with DNA methylation Genes Dev. 13 1999 1924 1935
-
(1999)
Genes Dev.
, vol.13
, pp. 1924-1935
-
-
Zhang, Y.1
Ng, H.H.2
Erdjument-Bromage, H.3
Tempst, P.4
Bird, A.5
Reinberg, D.6
-
44
-
-
67649292737
-
Unlocking the secrets of the genome
-
modENCODE Consortium
-
S.E. Celniker, L.A.L. Dillon, M.B. Gerstein, K.C. Gunsalus, S. Henikoff, G.H. Karpen, M. Kellis, E.C. Lai, J.D. Lieb, D.M. MacAlpine modENCODE Consortium Unlocking the secrets of the genome Nature 459 2009 927 930
-
(2009)
Nature
, vol.459
, pp. 927-930
-
-
Celniker, S.E.1
Dillon, L.A.L.2
Gerstein, M.B.3
Gunsalus, K.C.4
Henikoff, S.5
Karpen, G.H.6
Kellis, M.7
Lai, E.C.8
Lieb, J.D.9
MacAlpine, D.M.10
-
45
-
-
44649117905
-
Integration of external signaling pathways with the core transcriptional network in embryonic stem cells
-
X. Chen, H. Xu, P. Yuan, F. Fang, M. Huss, V.B. Vega, E. Wong, Y.L. Orlov, W. Zhang, and J. Jiang Integration of external signaling pathways with the core transcriptional network in embryonic stem cells Cell 133 2008 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
-
46
-
-
78650758676
-
Histone H3K27ac separates active from poised enhancers and predicts developmental state
-
M.P. Creyghton, A.W. Cheng, G.G. Welstead, T. Kooistra, B.W. Carey, E.J. Steine, J. Hanna, M.A. Lodato, G.M. Frampton, and P.A. Sharp Histone H3K27ac separates active from poised enhancers and predicts developmental state Proc. Natl. Acad. Sci. USA 107 2010 21931 21936
-
(2010)
Proc. Natl. Acad. Sci. USA
, 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
-
47
-
-
33750329496
-
CpGcluster: A distance-based algorithm for CpG-island detection
-
M. Hackenberg, C. Previti, P.L. Luque-Escamilla, P. Carpena, J. Martínez-Aroza, and J.L. Oliver CpGcluster: a distance-based algorithm for CpG-island detection BMC Bioinformatics 7 2006 446
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 446
-
-
Hackenberg, M.1
Previti, C.2
Luque-Escamilla, P.L.3
Carpena, P.4
Martínez-Aroza, J.5
Oliver, J.L.6
-
48
-
-
0142121516
-
Exploration, normalization, and summaries of high density oligonucleotide array probe level data
-
R.A. Irizarry, B. Hobbs, F. Collin, Y.D. Beazer-Barclay, K.J. Antonellis, U. Scherf, and T.P. Speed Exploration, normalization, and summaries of high density oligonucleotide array probe level data Biostatistics 4 2003 249 264
-
(2003)
Biostatistics
, vol.4
, pp. 249-264
-
-
Irizarry, R.A.1
Hobbs, B.2
Collin, F.3
Beazer-Barclay, Y.D.4
Antonellis, K.J.5
Scherf, U.6
Speed, T.P.7
-
49
-
-
79957844585
-
DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs
-
M.M. Karimi, P. Goyal, I.A. Maksakova, M. Bilenky, D. Leung, J.X. Tang, Y. Shinkai, D.L. Mager, S. Jones, M. Hirst, and M.C. Lorincz DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs Cell Stem Cell 8 2011 676 687
-
(2011)
Cell Stem Cell
, vol.8
, pp. 676-687
-
-
Karimi, M.M.1
Goyal, P.2
Maksakova, I.A.3
Bilenky, M.4
Leung, D.5
Tang, J.X.6
Shinkai, Y.7
Mager, D.L.8
Jones, S.9
Hirst, M.10
Lorincz, M.C.11
-
50
-
-
79959853781
-
Genomic prevalence of heterochromatic H3K9me2 and transcription do not discriminate pluripotent from terminally differentiated cells
-
F. Lienert, F. Mohn, V.K. Tiwari, T. Baubec, T.C. Roloff, D. Gaidatzis, M.B. Stadler, and D. Schübeler Genomic prevalence of heterochromatic H3K9me2 and transcription do not discriminate pluripotent from terminally differentiated cells PLoS Genet. 7 2011 e1002090
-
(2011)
PLoS Genet.
, vol.7
, pp. 1002090
-
-
Lienert, F.1
Mohn, F.2
Tiwari, V.K.3
Baubec, T.4
Roloff, T.C.5
Gaidatzis, D.6
Stadler, M.B.7
Schübeler, D.8
-
51
-
-
84862551364
-
PGC7 binds histone H3K9me2 to protect against conversion of 5mC to 5hmC in early embryos
-
T. Nakamura, Y.-J. Liu, H. Nakashima, H. Umehara, K. Inoue, S. Matoba, M. Tachibana, A. Ogura, Y. Shinkai, and T. Nakano PGC7 binds histone H3K9me2 to protect against conversion of 5mC to 5hmC in early embryos Nature 486 2012 415 419
-
(2012)
Nature
, vol.486
, pp. 415-419
-
-
Nakamura, T.1
Liu, Y.-J.2
Nakashima, H.3
Umehara, H.4
Inoue, K.5
Matoba, S.6
Tachibana, M.7
Ogura, A.8
Shinkai, Y.9
Nakano, T.10
-
52
-
-
80555156105
-
In embryonic stem cells, ZFP57/KAP1 recognize a methylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions
-
S. Quenneville, G. Verde, A. Corsinotti, A. Kapopoulou, J. Jakobsson, S. Offner, I. Baglivo, P.V. Pedone, G. Grimaldi, A. Riccio, and D. Trono In embryonic stem cells, ZFP57/KAP1 recognize a methylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions Mol. Cell 44 2011 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
Trono, D.11
-
53
-
-
84864216831
-
Chromatin measurements reveal contributions of synthesis and decay to steady-state mRNA levels
-
S.C. Tippmann, R. Ivanek, D. Gaidatzis, A. Schöler, L. Hoerner, E. van Nimwegen, P.F. Stadler, M.B. Stadler, and D. Schübeler Chromatin measurements reveal contributions of synthesis and decay to steady-state mRNA levels Mol. Syst. Biol. 8 2012 593
-
(2012)
Mol. Syst. Biol.
, vol.8
, pp. 593
-
-
Tippmann, S.C.1
Ivanek, R.2
Gaidatzis, D.3
Schöler, A.4
Hoerner, L.5
Van Nimwegen, E.6
Stadler, P.F.7
Stadler, M.B.8
Schübeler, D.9
-
54
-
-
84859987415
-
Target genes of Topoisomerase IIβ regulate neuronal survival and are defined by their chromatin state
-
V.K. Tiwari, L. Burger, V. Nikoletopoulou, R. Deogracias, S. Thakurela, C. Wirbelauer, J. Kaut, R. Terranova, L. Hoerner, and C. Mielke Target genes of Topoisomerase IIβ regulate neuronal survival and are defined by their chromatin state Proc. Natl. Acad. Sci. USA 109 2012 E934 E943
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
-
-
Tiwari, V.K.1
Burger, L.2
Nikoletopoulou, V.3
Deogracias, R.4
Thakurela, S.5
Wirbelauer, C.6
Kaut, J.7
Terranova, R.8
Hoerner, L.9
Mielke, C.10
-
55
-
-
34047116826
-
Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome
-
M. Weber, I. Hellmann, M.B. Stadler, L. Ramos, S. Pääbo, M. Rebhan, and D. Schübeler Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome Nat. Genet. 39 2007 457 466
-
(2007)
Nat. Genet.
, vol.39
, pp. 457-466
-
-
Weber, M.1
Hellmann, I.2
Stadler, M.B.3
Ramos, L.4
Pääbo, S.5
Rebhan, M.6
Schübeler, D.7
-
56
-
-
84856962477
-
Enhancer decommissioning by LSD1 during embryonic stem cell differentiation
-
W.A. Whyte, S. Bilodeau, D.A. Orlando, H.A. Hoke, G.M. Frampton, C.T. Foster, S.M. Cowley, and R.A. Young Enhancer decommissioning by LSD1 during embryonic stem cell differentiation Nature 482 2012 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
-
57
-
-
79956292024
-
Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells
-
H. Wu, A.C. D'Alessio, S. Ito, K. Xia, Z. Wang, K. Cui, K. Zhao, Y.E. Sun, and Y. Zhang Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells Nature 473 2011 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
-
58
-
-
70350686165
-
Eset partners with Oct4 to restrict extraembryonic trophoblast lineage potential in embryonic stem cells
-
P. Yuan, J. Han, G. Guo, Y.L. Orlov, M. Huss, Y.H. Loh, L.P. Yaw, P. Robson, B. Lim, and H.H. Ng Eset partners with Oct4 to restrict extraembryonic trophoblast lineage potential in embryonic stem cells Genes Dev. 23 2009 2507 2520
-
(2009)
Genes Dev.
, vol.23
, pp. 2507-2520
-
-
Yuan, P.1
Han, J.2
Guo, G.3
Orlov, Y.L.4
Huss, M.5
Loh, Y.H.6
Yaw, L.P.7
Robson, P.8
Lim, B.9
Ng, H.H.10
|