-
1
-
-
0036144048
-
DNA methylation patterns and epigenetic memory
-
Bird, A. DNA methylation patterns and epigenetic memory. Genes Dev. 16, 6-21 (2002).
-
(2002)
Genes Dev
, vol.16
, pp. 6-21
-
-
Bird, A.1
-
2
-
-
84859910536
-
A unique regulatory phase of DNA methylation in the early mammalian embryo
-
Smith, Z. D. et al. A unique regulatory phase of DNA methylation in the early mammalian embryo. Nature 484, 339-344 (2012).
-
(2012)
Nature
, vol.484
, pp. 339-344
-
-
Smith, Z.D.1
-
3
-
-
84871702441
-
The dynamics of genome-wide DNA methylation reprogramming in mouse primordial germ cells
-
Seisenberger, S. et al. The dynamics of genome-wide DNA methylation reprogramming in mouse primordial germ cells. Mol. Cell 48, 849-862 (2012).
-
(2012)
Mol. Cell
, vol.48
, pp. 849-862
-
-
Seisenberger, S.1
-
4
-
-
80053348585
-
The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes
-
Gu, T.-P. et al. The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes. Nature 477, 606-610 (2011).
-
(2011)
Nature
, vol.477
, pp. 606-610
-
-
Gu, T.-P.1
-
5
-
-
84871438065
-
Tet1 controls meiosis by regulating meiotic gene expression
-
Yamaguchi, S. et al. Tet1 controls meiosis by regulating meiotic gene expression. Nature 492, 443-447 (2012).
-
(2012)
Nature
, vol.492
, pp. 443-447
-
-
Yamaguchi, S.1
-
6
-
-
84872770694
-
Germline DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine
-
Hackett, J. A. et al. Germline DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine. Science 339, 448-452 (2013).
-
(2013)
Science
, vol.339
, pp. 448-452
-
-
Hackett, J.A.1
-
7
-
-
66149146320
-
Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1
-
Tahiliani, M. et al. Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1. Science 324, 930-935 (2009).
-
(2009)
Science
, vol.324
, pp. 930-935
-
-
Tahiliani, M.1
-
8
-
-
79956308473
-
Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells
-
Pastor, W. A. et al. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature 473, 394-397 (2011).
-
(2011)
Nature
, vol.473
, pp. 394-397
-
-
Pastor, W.A.1
-
9
-
-
79956292024
-
Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells
-
Wu, H. et al. Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells. Nature 473, 389-393 (2011).
-
(2011)
Nature
, vol.473
, pp. 389-393
-
-
Wu, H.1
-
10
-
-
79956302047
-
TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity
-
Williams, K. et al. TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity. Nature 473, 343-348 (2011).
-
(2011)
Nature
, vol.473
, pp. 343-348
-
-
Williams, K.1
-
11
-
-
79956323623
-
Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation
-
Ficz, G. et al. Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation. Nature 473, 398-402 (2011).
-
(2011)
Nature
, vol.473
, pp. 398-402
-
-
Ficz, G.1
-
12
-
-
79551587102
-
Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells
-
Koh, K. P. et al. Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells. Cell Stem Cell 8, 200-213 (2011).
-
(2011)
Cell Stem Cell
, vol.8
, pp. 200-213
-
-
Koh, K.P.1
-
13
-
-
84857467013
-
Contribution of intragenic DNA methylation in mouse gametic DNA methylomes to establish oocyte-specific heritable marks
-
Kobayashi, H. et al. Contribution of intragenic DNA methylation in mouse gametic DNA methylomes to establish oocyte-specific heritable marks. PLoS Genet. 8, e1002440 (2012).
-
(2012)
PLoS Genet
, vol.8
-
-
Kobayashi, H.1
-
14
-
-
84860351082
-
The transcriptional and epigenomic foundations of ground state pluripotency
-
Marks, H. et al. The transcriptional and epigenomic foundations of ground state pluripotency. Cell 149, 590-604 (2012).
-
(2012)
Cell
, vol.149
, pp. 590-604
-
-
Marks, H.1
-
15
-
-
39349105090
-
Expanding chemical biology of 2-oxoglutarate oxygenases
-
Loenarz, C. & Schofield, C. J. Expanding chemical biology of 2-oxoglutarate oxygenases. Nature Chem. Biol. 4, 152-156 (2008).
-
(2008)
Nature Chem. Biol
, vol.4
, pp. 152-156
-
-
Loenarz, C.1
Schofield, C.J.2
-
16
-
-
0035071815
-
An abundance of X-linked genes expressed in spermatogonia
-
Wang, P. J., McCarrey, J. R., Yang, F. & Page, D. C. An abundance of X-linked genes expressed in spermatogonia. Nature Genet. 27, 422-426 (2001).
-
(2001)
Nature Genet
, vol.27
, pp. 422-426
-
-
Wang, P.J.1
McCarrey, J.R.2
Yang, F.3
Page, D.C.4
-
17
-
-
38649126918
-
Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog
-
Fouse, S. D. et al. Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcGcomplex, and histone H3K4/K27 trimethylation. Cell Stem Cell 2, 160-169 (2008).
-
(2008)
PcGcomplex, and Histone H3K4/K27 Trimethylation. Cell Stem Cell
, vol.2
, pp. 160-169
-
-
Fouse, S.D.1
-
18
-
-
79957844585
-
DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mES cells
-
Karimi, M. M. et al. DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mES cells. Cell Stem Cell 8, 676-687 (2011).
-
(2011)
Cell Stem Cell
, vol.8
, Issue.676-687
-
-
Karimi, M.M.1
-
19
-
-
82755187396
-
Thehistonedemethylases Jhdm1a/1benhancesomatic cell reprogramming in a vitamin-C-dependentmanner
-
Wang,T. et al.Thehistonedemethylases Jhdm1a/1benhancesomatic cell reprogramming in a vitamin-C-dependentmanner. Cell Stem Cell 9, 575-587 (2011).
-
(2011)
Cell Stem Cell
, vol.9
, pp. 575-587
-
-
Wang, T.1
-
20
-
-
79961139741
-
Tet1 is dispensable for maintaining pluripotency and its loss is compatible withembryonic andpostnatal development
-
Dawlaty, M. M. et al. Tet1 is dispensable for maintaining pluripotency and its loss is compatible withembryonic andpostnatal development. Cell StemCell 9,166-175 (2011).
-
(2011)
Cell StemCell
, vol.9
, Issue.166-175
-
-
Dawlaty, M.M.1
-
21
-
-
84873707539
-
Combined deficiency of Tet1 and Tet2 causes epigenetic abnormalities but is compatible with postnatal development
-
Dawlaty, M. M. et al. Combined deficiency of Tet1 and Tet2 causes epigenetic abnormalities but is compatible with postnatal development. Dev. Cell 24, 310-323 (2013).
-
(2013)
Dev. Cell
, vol.24
, pp. 310-323
-
-
Dawlaty, M.M.1
-
22
-
-
78649459828
-
Targets and dynamics of promoter DNA methylation during early mouse development
-
Borgel, J. et al. Targets and dynamics of promoter DNA methylation during early mouse development. Nature Genet. 42, 1093-1100 (2010).
-
(2010)
Nature Genet
, vol.42
, pp. 1093-1100
-
-
Borgel, J.1
-
23
-
-
77956412152
-
Tracing the derivation of embryonic stem cells from the inner cell mass by single-cell RNA-Seq analysis
-
Tang, F. et al. Tracing the derivation of embryonic stem cells from the inner cell mass by single-cell RNA-Seq analysis. Cell Stem Cell 6, 468-478 (2010).
-
(2010)
Cell Stem Cell
, vol.6
, pp. 468-478
-
-
Tang, F.1
-
24
-
-
84875201183
-
Naive pluripotency is associated with global DNA hypomethylation
-
Leitch, H. G. et al. Naive pluripotency is associated with global DNA hypomethylation. Nature Struct. Mol. Biol. 20, 311-316 (2013).
-
(2013)
Nature Struct. Mol. Biol
, vol.20
, pp. 311-316
-
-
Leitch, H.G.1
-
25
-
-
77957264475
-
VitaminC promotes widespread yet specific DNAdemethylation of the epigenome in human embryonic stem cells
-
Chung, T.-L. et al. VitaminC promotes widespread yet specific DNAdemethylation of the epigenome in human embryonic stem cells. Stem Cells 28, 1848-1855 (2010).
-
(2010)
Stem Cells
, vol.28
, pp. 1848-1855
-
-
Chung, T.-L.1
-
26
-
-
84862777034
-
Ascorbic acid prevents loss of Dlk1-Dio3 imprinting and facilitates generation of all-iPS cell mice from terminally differentiated B cells
-
Stadtfeld, M. et al. Ascorbic acid prevents loss of Dlk1-Dio3 imprinting and facilitates generation of all-iPS cell mice from terminally differentiated B cells. Nature Genet. 44, 398-405 (2012).
-
(2012)
Nature Genet
, vol.44
, pp. 398-405
-
-
Stadtfeld, M.1
-
27
-
-
84865486793
-
Early-stage epigenetic modification during somatic cell reprogramming by Parp1 and Tet2
-
Doege, C. A. et al. Early-stage epigenetic modification during somatic cell reprogramming by Parp1 and Tet2. Nature 488, 652-655 (2012).
-
(2012)
Nature
, vol.488
, pp. 652-655
-
-
Doege, C.A.1
-
28
-
-
84875923762
-
Replacement of Oct4 by Tet1 during iPSC induction reveals an important role of DNA methylation and hydroxymethylation in reprogramming
-
Gao, Y. et al. Replacement of Oct4 by Tet1 during iPSC induction reveals an important role of DNA methylation and hydroxymethylation in reprogramming. Cell Stem Cell 12, 453-469 (2013).
-
(2013)
Cell Stem Cell
, vol.12
, pp. 453-469
-
-
Gao, Y.1
-
29
-
-
84877693964
-
Ascorbate induces Ten-eleven translocation (Tet) methylcytosine dioxygenase-mediated generation of 5-hydroxymethylcytosine
-
Minor, E. A., Court, B. L., Young, J. I. & Wang, G. Ascorbate induces Ten-eleven translocation (Tet) methylcytosine dioxygenase-mediated generation of 5-hydroxymethylcytosine. J. Biol. Chem. 288, 13669-13674 (2013).
-
(2013)
J. Biol. Chem
, vol.288
, pp. 13669-13674
-
-
Minor, E.A.1
Court, B.L.2
Young, J.I.3
Wang, G.4
-
30
-
-
84860749868
-
Tet family proteins and 5-hydroxymethylcytosine in development and disease
-
Tan, L. & Shi, Y. G. Tet family proteins and 5-hydroxymethylcytosine in development and disease. Development 139, 1895-1902 (2012).
-
(2012)
Development
, vol.139
, pp. 1895-1902
-
-
Tan, L.1
Shi, Y.G.2
-
31
-
-
44349170450
-
The ground state of embryonic stemcell self-renewal
-
Ying, Q.-L. et al. The ground state of embryonic stemcell self-renewal. Nature 453, 519-523 (2008).
-
(2008)
Nature
, vol.453
, pp. 519-523
-
-
Ying, Q.-L.1
-
32
-
-
48449097251
-
QUMA: Quantification tool for methylation analysis
-
Kumaki, Y., Oda, M. & Okano, M. QUMA: quantification tool for methylation analysis. Nucleic Acids Res. 36, W170-W175 (2008).
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Kumaki, Y.1
Oda, M.2
Okano, M.3
-
33
-
-
80052029516
-
Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma
-
Morin, R. D. et al. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature 476, 298-303 (2011).
-
(2011)
Nature
, vol.476
, pp. 298-303
-
-
Morin, R.D.1
-
34
-
-
77957946398
-
ARID1A mutations in endometriosis-associated ovarian carcinomas
-
Wiegand, K. C. et al. ARID1A mutations in endometriosis-associated ovarian carcinomas. N. Engl. J. Med. 363, 1532-1543 (2010).
-
(2010)
N. Engl. J. Med
, vol.363
, pp. 1532-1543
-
-
Wiegand, K.C.1
-
35
-
-
55549097836
-
Mapping short DNA sequencing reads and calling variants using mapping quality scores
-
Li, H., Ruan, J. & Durbin, R. Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res. 18, 1851-1858 (2008).
-
(2008)
Genome Res
, vol.18
, pp. 1851-1858
-
-
Li, H.1
Ruan, J.2
Durbin, R.3
-
36
-
-
68549104404
-
The Sequence Alignment/Map format and SAMtools
-
Li, H. et al. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25, 2078-2079 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
-
37
-
-
48249140621
-
FindPeaks 3.1: A tool for identifying areas of enrichment from massively parallel short-read sequencing technology
-
Fejes, A. P. et al. FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology. Bioinformatics 24, 1729-1730 (2008).
-
(2008)
Bioinformatics
, vol.24
, pp. 1729-1730
-
-
Fejes, A.P.1
-
38
-
-
77955895425
-
Bigwig andbigbed: Enablingbrowsingof large distributeddatasets
-
Kent,W. J., Zweig, A. S.,Barber, G.,Hinrichs, A. S.& Karolchik,D.BigWig andBigBed: enablingbrowsingof large distributeddatasets. Bioinformatics 26,2204-2207(2010).
-
(2010)
Bioinformatics
, vol.26
, pp. 2204-2207
-
-
Kent, W.J.1
Zweig, A.S.2
Barber, G.3
Hinrichs, A.S.4
Karolchik, D.5
-
39
-
-
46249106990
-
Mapping and quantifyingmammalian transcriptomesbyRNA-Seq
-
Mortazavi, A., Williams, B. A., McCue, K., Schaeffer, L. & Wold, B. Mapping and quantifyingmammalian transcriptomesbyRNA-Seq. NatureMethods 5, 621-628 (2008).
-
(2008)
NatureMethods
, vol.5
, pp. 621-628
-
-
Mortazavi, A.1
Williams, B.A.2
McCue, K.3
Schaeffer, L.4
Wold, B.5
-
41
-
-
0035162594
-
Refseq and locuslink: Ncbi gene-centered resources
-
Pruitt, K. D. & Maglott, D. R. RefSeq and LocusLink:NCBI gene-centered resources. Nucleic Acids Res. 29, 137-140 (2001).
-
(2001)
Nucleic Acids Res
, Issue.29
, pp. 137-140
-
-
Pruitt, K.D.1
Maglott, D.R.2
-
42
-
-
84879834810
-
An interactive analysis and exploration tool for epigenomic data computer graphics forum
-
Younesy, H. et al. An interactive analysis and exploration tool for epigenomic data. Computer Graphics Forum(EurographicsConference on Visualization (EuroVis) 2013) 32 (number 3), 92-93 (2013).
-
(2013)
EurographicsConference on Visualization (EuroVis
, vol.32
, Issue.3
, pp. 92-93
-
-
Younesy, H.1
|