-
1
-
-
77956272401
-
Global chromatin architecture reflects pluripotency and lineage commitment in the early mouse embryo
-
K. Ahmed, H. Dehghani, P. Rugg-Gunn, E. Fussner, J. Rossant, and D.P. Bazett-Jones Global chromatin architecture reflects pluripotency and lineage commitment in the early mouse embryo PLoS ONE 5 2010 e10531
-
(2010)
PLoS ONE
, vol.5
, pp. e10531
-
-
Ahmed, K.1
Dehghani, H.2
Rugg-Gunn, P.3
Fussner, E.4
Rossant, J.5
Bazett-Jones, D.P.6
-
3
-
-
38649099445
-
High-resolution mapping and characterization of open chromatin across the genome
-
A.P. Boyle, S. Davis, H.P. Shulha, P. Meltzer, E.H. Margulies, Z. Weng, T.S. Furey, and G.E. Crawford High-resolution mapping and characterization of open chromatin across the genome Cell 132 2008 311 322
-
(2008)
Cell
, vol.132
, pp. 311-322
-
-
Boyle, A.P.1
Davis, S.2
Shulha, H.P.3
Meltzer, P.4
Margulies, E.H.5
Weng, Z.6
Furey, T.S.7
Crawford, G.E.8
-
4
-
-
84888877924
-
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
-
J.D. Buenrostro, P.G. Giresi, L.C. Zaba, H.Y. Chang, and W.J. Greenleaf Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position Nat. Methods 10 2013 1213 1218
-
(2013)
Nat. Methods
, vol.10
, pp. 1213-1218
-
-
Buenrostro, J.D.1
Giresi, P.G.2
Zaba, L.C.3
Chang, H.Y.4
Greenleaf, W.J.5
-
5
-
-
84937857359
-
Single-cell chromatin accessibility reveals principles of regulatory variation
-
J.D. Buenrostro, B. Wu, U.M. Litzenburger, D. Ruff, M.L. Gonzales, M.P. Snyder, H.Y. Chang, and W.J. Greenleaf Single-cell chromatin accessibility reveals principles of regulatory variation Nature 523 2015 486 490
-
(2015)
Nature
, vol.523
, pp. 486-490
-
-
Buenrostro, J.D.1
Wu, B.2
Litzenburger, U.M.3
Ruff, D.4
Gonzales, M.L.5
Snyder, M.P.6
Chang, H.Y.7
Greenleaf, W.J.8
-
6
-
-
79955029493
-
Epigenetic reprogramming and development: A unique heterochromatin organization in the preimplantation mouse embryo
-
A. Burton, and M.E. Torres-Padilla Epigenetic reprogramming and development: a unique heterochromatin organization in the preimplantation mouse embryo Brief. Funct. Genomics 9 2010 444 454
-
(2010)
Brief. Funct. Genomics
, vol.9
, pp. 444-454
-
-
Burton, A.1
Torres-Padilla, M.E.2
-
7
-
-
84908205907
-
Chromatin dynamics in the regulation of cell fate allocation during early embryogenesis
-
A. Burton, and M.E. Torres-Padilla Chromatin dynamics in the regulation of cell fate allocation during early embryogenesis Nat. Rev. Mol. Cell Biol. 15 2014 723 734
-
(2014)
Nat. Rev. Mol. Cell Biol.
, vol.15
, pp. 723-734
-
-
Burton, A.1
Torres-Padilla, M.E.2
-
8
-
-
84887617702
-
Single-cell profiling of epigenetic modifiers identifies PRDM14 as an inducer of cell fate in the mammalian embryo
-
A. Burton, J. Muller, S. Tu, P. Padilla-Longoria, E. Guccione, and M.-E. Torres-Padilla Single-cell profiling of epigenetic modifiers identifies PRDM14 as an inducer of cell fate in the mammalian embryo Cell Rep. 5 2013 687 701
-
(2013)
Cell Rep.
, vol.5
, pp. 687-701
-
-
Burton, A.1
Muller, J.2
Tu, S.3
Padilla-Longoria, P.4
Guccione, E.5
Torres-Padilla, M.-E.6
-
9
-
-
0041631077
-
Epigenetic properties and identification of an imprint mark in the Nesp-Gnasxl domain of the mouse Gnas imprinted locus
-
C. Coombes, P. Arnaud, E. Gordon, W. Dean, E.A. Coar, C.M. Williamson, R. Feil, J. Peters, and G. Kelsey Epigenetic properties and identification of an imprint mark in the Nesp-Gnasxl domain of the mouse Gnas imprinted locus Mol. Cell. Biol. 23 2003 5475 5488
-
(2003)
Mol. Cell. Biol.
, vol.23
, pp. 5475-5488
-
-
Coombes, C.1
Arnaud, P.2
Gordon, E.3
Dean, W.4
Coar, E.A.5
Williamson, C.M.6
Feil, R.7
Peters, J.8
Kelsey, G.9
-
10
-
-
84930006926
-
Epigenetics. Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing
-
D.A. Cusanovich, R. Daza, A. Adey, H.A. Pliner, L. Christiansen, K.L. Gunderson, F.J. Steemers, C. Trapnell, and J. Shendure Epigenetics. Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing Science 348 2015 910 914
-
(2015)
Science
, vol.348
, pp. 910-914
-
-
Cusanovich, D.A.1
Daza, R.2
Adey, A.3
Pliner, H.A.4
Christiansen, L.5
Gunderson, K.L.6
Steemers, F.J.7
Trapnell, C.8
Shendure, J.9
-
11
-
-
0030861296
-
Parental chromosome-specific chromatin conformation in the imprinted U2af1-rs1 gene in the mouse
-
R. Feil, M.D. Boyano, N.D. Allen, and G. Kelsey Parental chromosome-specific chromatin conformation in the imprinted U2af1-rs1 gene in the mouse J. Biol. Chem. 272 1997 20893 20900
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 20893-20900
-
-
Feil, R.1
Boyano, M.D.2
Allen, N.D.3
Kelsey, G.4
-
12
-
-
0023899769
-
Nuclease hypersensitive sites in chromatin
-
D.S. Gross, and W.T. Garrard Nuclease hypersensitive sites in chromatin Annu. Rev. Biochem. 57 1988 159 197
-
(1988)
Annu. Rev. Biochem.
, vol.57
, pp. 159-197
-
-
Gross, D.S.1
Garrard, W.T.2
-
13
-
-
0347763875
-
Dynamics of global gene expression changes during mouse preimplantation development
-
T. Hamatani, M.G. Carter, A.A. Sharov, and M.S. Ko Dynamics of global gene expression changes during mouse preimplantation development Dev. Cell 6 2004 117 131
-
(2004)
Dev. Cell
, vol.6
, pp. 117-131
-
-
Hamatani, T.1
Carter, M.G.2
Sharov, A.A.3
Ko, M.S.4
-
14
-
-
84903884263
-
Nucleosome assembly is required for nuclear pore complex assembly in mouse zygotes
-
A. Inoue, and Y. Zhang Nucleosome assembly is required for nuclear pore complex assembly in mouse zygotes Nat. Struct. Mol. Biol. 21 2014 609 616
-
(2014)
Nat. Struct. Mol. Biol.
, vol.21
, pp. 609-616
-
-
Inoue, A.1
Zhang, Y.2
-
15
-
-
84875204948
-
Dynamic alterations in the paternal epigenetic landscape following fertilization
-
T.G. Jenkins, and D.T. Carrell Dynamic alterations in the paternal epigenetic landscape following fertilization Front. Genet. 3 2012 143
-
(2012)
Front. Genet.
, vol.3
, pp. 143
-
-
Jenkins, T.G.1
Carrell, D.T.2
-
16
-
-
84949227165
-
Genome-wide detection of DNase i hypersensitive sites in single cells and FFPE tissue samples
-
W. Jin, Q. Tang, M. Wan, K. Cui, Y. Zhang, G. Ren, B. Ni, J. Sklar, T.M. Przytycka, R. Childs, and et al. Genome-wide detection of DNase I hypersensitive sites in single cells and FFPE tissue samples Nature 528 2015 142 146
-
(2015)
Nature
, vol.528
, pp. 142-146
-
-
Jin, W.1
Tang, Q.2
Wan, M.3
Cui, K.4
Zhang, Y.5
Ren, G.6
Ni, B.7
Sklar, J.8
Przytycka, T.M.9
Childs, R.10
-
17
-
-
79952184341
-
Chromatin accessibility pre-determines glucocorticoid receptor binding patterns
-
S. John, P.J. Sabo, R.E. Thurman, M.H. Sung, S.C. Biddie, T.A. Johnson, G.L. Hager, and J.A. Stamatoyannopoulos Chromatin accessibility pre-determines glucocorticoid receptor binding patterns Nat. Genet. 43 2011 264 268
-
(2011)
Nat. Genet.
, vol.43
, pp. 264-268
-
-
John, S.1
Sabo, P.J.2
Thurman, R.E.3
Sung, M.H.4
Biddie, S.C.5
Johnson, T.A.6
Hager, G.L.7
Stamatoyannopoulos, J.A.8
-
18
-
-
84888038427
-
Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition
-
M.T. Lee, A.R. Bonneau, C.M. Takacs, A.A. Bazzini, K.R. DiVito, E.S. Fleming, and A.J. Giraldez Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition Nature 503 2013 360 364
-
(2013)
Nature
, vol.503
, pp. 360-364
-
-
Lee, M.T.1
Bonneau, A.R.2
Takacs, C.M.3
Bazzini, A.A.4
DiVito, K.R.5
Fleming, E.S.6
Giraldez, A.J.7
-
19
-
-
84964314537
-
Zygotic genome activation during the maternal-to-zygotic transition
-
M.T. Lee, A.R. Bonneau, and A.J. Giraldez Zygotic genome activation during the maternal-to-zygotic transition Annu. Rev. Cell Dev. Biol. 30 2014 581 613
-
(2014)
Annu. Rev. Cell Dev. Biol.
, vol.30
, pp. 581-613
-
-
Lee, M.T.1
Bonneau, A.R.2
Giraldez, A.J.3
-
20
-
-
56749183626
-
The zinc-finger protein Zelda is a key activator of the early zygotic genome in Drosophila
-
H.L. Liang, C.Y. Nien, H.Y. Liu, M.M. Metzstein, N. Kirov, and C. Rushlow The zinc-finger protein Zelda is a key activator of the early zygotic genome in Drosophila Nature 456 2008 400 403
-
(2008)
Nature
, vol.456
, pp. 400-403
-
-
Liang, H.L.1
Nien, C.Y.2
Liu, H.Y.3
Metzstein, M.M.4
Kirov, N.5
Rushlow, C.6
-
21
-
-
84936933767
-
Cell totipotency: Molecular features, induction, and maintenance
-
F. Lu, and Y. Zhang Cell totipotency: molecular features, induction, and maintenance Natl. Sci. Rev. 2 2015 217 225
-
(2015)
Natl. Sci. Rev.
, vol.2
, pp. 217-225
-
-
Lu, F.1
Zhang, Y.2
-
22
-
-
84860351082
-
The transcriptional and epigenomic foundations of ground state pluripotency
-
H. Marks, T. Kalkan, R. Menafra, S. Denissov, K. Jones, H. Hofemeister, J. Nichols, A. Kranz, A.F. Stewart, A. Smith, and H.G. Stunnenberg The transcriptional and epigenomic foundations of ground state pluripotency Cell 149 2012 590 604
-
(2012)
Cell
, vol.149
, pp. 590-604
-
-
Marks, H.1
Kalkan, T.2
Menafra, R.3
Denissov, S.4
Jones, K.5
Hofemeister, H.6
Nichols, J.7
Kranz, A.8
Stewart, A.F.9
Smith, A.10
Stunnenberg, H.G.11
-
23
-
-
17444409344
-
Epigenetic reprogramming in mammals
-
H.D. Morgan, F. Santos, K. Green, W. Dean, and W. Reik Epigenetic reprogramming in mammals Hum. Mol. Genet. 14 2005 R47 R58
-
(2005)
Hum. Mol. Genet.
, vol.14
, pp. R47-R58
-
-
Morgan, H.D.1
Santos, F.2
Green, K.3
Dean, W.4
Reik, W.5
-
25
-
-
84872539860
-
Sequence-specific transcription factor NF-Y displays histone-like DNA binding and H2B-like ubiquitination
-
M. Nardini, N. Gnesutta, G. Donati, R. Gatta, C. Forni, A. Fossati, C. Vonrhein, D. Moras, C. Romier, M. Bolognesi, and R. Mantovani Sequence-specific transcription factor NF-Y displays histone-like DNA binding and H2B-like ubiquitination Cell 152 2013 132 143
-
(2013)
Cell
, vol.152
, pp. 132-143
-
-
Nardini, M.1
Gnesutta, N.2
Donati, G.3
Gatta, R.4
Forni, C.5
Fossati, A.6
Vonrhein, C.7
Moras, D.8
Romier, C.9
Bolognesi, M.10
Mantovani, R.11
-
26
-
-
84921691854
-
Histone-fold domain protein NF-Y promotes chromatin accessibility for cell type-specific master transcription factors
-
A.J. Oldfield, P. Yang, A.E. Conway, S. Cinghu, J.M. Freudenberg, S. Yellaboina, and R. Jothi Histone-fold domain protein NF-Y promotes chromatin accessibility for cell type-specific master transcription factors Mol. Cell 55 2014 708 722
-
(2014)
Mol. Cell
, vol.55
, pp. 708-722
-
-
Oldfield, A.J.1
Yang, P.2
Conway, A.E.3
Cinghu, S.4
Freudenberg, J.M.5
Yellaboina, S.6
Jothi, R.7
-
27
-
-
0017108749
-
Postimplantation development of blastomeres isolated from 4- and 8-cell mouse eggs
-
J. Rossant Postimplantation development of blastomeres isolated from 4- and 8-cell mouse eggs J. Embryol. Exp. Morphol. 36 1976 283 290
-
(1976)
J. Embryol. Exp. Morphol.
, vol.36
, pp. 283-290
-
-
Rossant, J.1
-
28
-
-
0036629076
-
The molecular foundations of the maternal to zygotic transition in the preimplantation embryo
-
R.M. Schultz The molecular foundations of the maternal to zygotic transition in the preimplantation embryo Hum. Reprod. Update 8 2002 323 331
-
(2002)
Hum. Reprod. Update
, vol.8
, pp. 323-331
-
-
Schultz, R.M.1
-
29
-
-
84893863046
-
Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape
-
R.I. Sherwood, T. Hashimoto, C.W. O'Donnell, S. Lewis, A.A. Barkal, J.P. van Hoff, V. Karun, T. Jaakkola, and D.K. Gifford Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape Nat. Biotechnol. 32 2014 171 178
-
(2014)
Nat. Biotechnol.
, vol.32
, pp. 171-178
-
-
Sherwood, R.I.1
Hashimoto, T.2
O'Donnell, C.W.3
Lewis, S.4
Barkal, A.A.5
Van Hoff, J.P.6
Karun, V.7
Jaakkola, T.8
Gifford, D.K.9
-
30
-
-
84870058502
-
Facilitators and impediments of the pluripotency reprogramming factors' initial engagement with the genome
-
A. Soufi, G. Donahue, and K.S. Zaret Facilitators and impediments of the pluripotency reprogramming factors' initial engagement with the genome Cell 151 2012 994 1004
-
(2012)
Cell
, vol.151
, pp. 994-1004
-
-
Soufi, A.1
Donahue, G.2
Zaret, K.S.3
-
31
-
-
84882766972
-
Developmental fate and cellular maturity encoded in human regulatory DNA landscapes
-
A.B. Stergachis, S. Neph, A. Reynolds, R. Humbert, B. Miller, S.L. Paige, B. Vernot, J.B. Cheng, R.E. Thurman, R. Sandstrom, and et al. Developmental fate and cellular maturity encoded in human regulatory DNA landscapes Cell 154 2013 888 903
-
(2013)
Cell
, vol.154
, pp. 888-903
-
-
Stergachis, A.B.1
Neph, S.2
Reynolds, A.3
Humbert, R.4
Miller, B.5
Paige, S.L.6
Vernot, B.7
Cheng, J.B.8
Thurman, R.E.9
Sandstrom, R.10
-
32
-
-
84946478180
-
Sculpting the Transcriptome during the Oocyte-to-Embryo Transition in Mouse
-
P. Svoboda, V. Franke, and R.M. Schultz Sculpting the Transcriptome During the Oocyte-to-Embryo Transition in Mouse Curr. Top. Dev. Biol. 113 2015 305 349
-
(2015)
Curr. Top. Dev. Biol.
, vol.113
, pp. 305-349
-
-
Svoboda, P.1
Franke, V.2
Schultz, R.M.3
-
33
-
-
79955760882
-
Dynamic reprogramming of chromatin accessibility during Drosophila embryo development
-
S. Thomas, X.Y. Li, P.J. Sabo, R. Sandstrom, R.E. Thurman, T.K. Canfield, E. Giste, W. Fisher, A. Hammonds, S.E. Celniker, and et al. Dynamic reprogramming of chromatin accessibility during Drosophila embryo development Genome Biol. 12 2011 R43
-
(2011)
Genome Biol.
, vol.12
, pp. R43
-
-
Thomas, S.1
Li, X.Y.2
Sabo, P.J.3
Sandstrom, R.4
Thurman, R.E.5
Canfield, T.K.6
Giste, E.7
Fisher, W.8
Hammonds, A.9
Celniker, S.E.10
-
34
-
-
84865755978
-
The accessible chromatin landscape of the human genome
-
R.E. Thurman, E. Rynes, R. Humbert, J. Vierstra, M.T. Maurano, E. Haugen, N.C. Sheffield, A.B. Stergachis, H. Wang, B. Vernot, and et al. The accessible chromatin landscape of the human genome Nature 489 2012 75 82
-
(2012)
Nature
, vol.489
, pp. 75-82
-
-
Thurman, R.E.1
Rynes, E.2
Humbert, R.3
Vierstra, J.4
Maurano, M.T.5
Haugen, E.6
Sheffield, N.C.7
Stergachis, A.B.8
Wang, H.9
Vernot, B.10
-
35
-
-
84857727055
-
Genomic imprinting and its relevance to congenital disease, infertility, molar pregnancy and induced pluripotent stem cell
-
S. Tomizawa, and H. Sasaki Genomic imprinting and its relevance to congenital disease, infertility, molar pregnancy and induced pluripotent stem cell J. Hum. Genet. 57 2012 84 91
-
(2012)
J. Hum. Genet.
, vol.57
, pp. 84-91
-
-
Tomizawa, S.1
Sasaki, H.2
-
36
-
-
46849115787
-
Autophagy is essential for preimplantation development of mouse embryos
-
S. Tsukamoto, A. Kuma, M. Murakami, C. Kishi, A. Yamamoto, and N. Mizushima Autophagy is essential for preimplantation development of mouse embryos Science 321 2008 117 120
-
(2008)
Science
, vol.321
, pp. 117-120
-
-
Tsukamoto, S.1
Kuma, A.2
Murakami, M.3
Kishi, C.4
Yamamoto, A.5
Mizushima, N.6
-
37
-
-
84911939594
-
Mouse regulatory DNA landscapes reveal global principles of cis-regulatory evolution
-
J. Vierstra, E. Rynes, R. Sandstrom, M. Zhang, T. Canfield, R.S. Hansen, S. Stehling-Sun, P.J. Sabo, R. Byron, R. Humbert, and et al. Mouse regulatory DNA landscapes reveal global principles of cis-regulatory evolution Science 346 2014 1007 1012
-
(2014)
Science
, vol.346
, pp. 1007-1012
-
-
Vierstra, J.1
Rynes, E.2
Sandstrom, R.3
Zhang, M.4
Canfield, T.5
Hansen, R.S.6
Stehling-Sun, S.7
Sabo, P.J.8
Byron, R.9
Humbert, R.10
-
38
-
-
0034642305
-
Differential chromatin packaging of genomic imprinted regions between expressed and non-expressed alleles
-
T. Watanabe, A. Yoshimura, Y. Mishima, Y. Endo, T. Shiroishi, T. Koide, H. Sasaki, H. Asakura, and R. Kominami Differential chromatin packaging of genomic imprinted regions between expressed and non-expressed alleles Hum. Mol. Genet. 9 2000 3029 3035
-
(2000)
Hum. Mol. Genet.
, vol.9
, pp. 3029-3035
-
-
Watanabe, T.1
Yoshimura, A.2
Mishima, Y.3
Endo, Y.4
Shiroishi, T.5
Koide, T.6
Sasaki, H.7
Asakura, H.8
Kominami, R.9
-
39
-
-
84876216563
-
Master transcription factors and mediator establish super-enhancers at key cell identity genes
-
W.A. Whyte, D.A. Orlando, D. Hnisz, B.J. Abraham, C.Y. Lin, M.H. Kagey, P.B. Rahl, T.I. Lee, and R.A. Young Master transcription factors and mediator establish super-enhancers at key cell identity genes Cell 153 2013 307 319
-
(2013)
Cell
, vol.153
, pp. 307-319
-
-
Whyte, W.A.1
Orlando, D.A.2
Hnisz, D.3
Abraham, B.J.4
Lin, C.Y.5
Kagey, M.H.6
Rahl, P.B.7
Lee, T.I.8
Young, R.A.9
-
40
-
-
0025939513
-
Regulation of gene expression in preimplantation mouse embryos: Effects of the zygotic clock and the first mitosis on promoter and enhancer activities
-
M. Wiekowski, M. Miranda, and M.L. DePamphilis Regulation of gene expression in preimplantation mouse embryos: effects of the zygotic clock and the first mitosis on promoter and enhancer activities Dev. Biol. 147 1991 403 414
-
(1991)
Dev. Biol.
, vol.147
, pp. 403-414
-
-
Wiekowski, M.1
Miranda, M.2
DePamphilis, M.L.3
-
41
-
-
84883134780
-
Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing
-
Z. Xue, K. Huang, C. Cai, L. Cai, C.Y. Jiang, Y. Feng, Z. Liu, Q. Zeng, L. Cheng, Y.E. Sun, and et al. Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing Nature 500 2013 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
|