-
1
-
-
33847032960
-
The Mammalian Epigenome
-
DOI 10.1016/j.cell.2007.01.033, PII S0092867407001286
-
Bernstein BE, Meissner A, Lander ES. The mammalian epigenome. Cell. 2007;128(4):669-681. (Pubitemid 46273573)
-
(2007)
Cell
, vol.128
, Issue.4
, pp. 669-681
-
-
Bernstein, B.E.1
Meissner, A.2
Lander, E.S.3
-
2
-
-
34249026300
-
High-Resolution Profiling of Histone Methylations in the Human Genome
-
DOI 10.1016/j.cell.2007.05.009, PII S0092867407006009
-
Barski A, Cuddapah S, Cui K, et al. High-resolution profiling of histone methylations in the human genome. Cell. 2007;129(4):823-837. (Pubitemid 46802390)
-
(2007)
Cell
, vol.129
, Issue.4
, pp. 823-837
-
-
Barski, A.1
Cuddapah, S.2
Cui, K.3
Roh, T.-Y.4
Schones, D.E.5
Wang, Z.6
Wei, G.7
Chepelev, I.8
Zhao, K.9
-
3
-
-
23944462969
-
Genome-wide map of nucleosome acetylation and methylation in yeast
-
DOI 10.1016/j.cell.2005.06.026, PII S0092867405006458
-
Pokholok DK, Harbison CT, Levine S, et al. Genome-wide map of nucleosome acetylation and methylation in yeast. Cell. 2005;122(4):517-527. (Pubitemid 41191151)
-
(2005)
Cell
, vol.122
, Issue.4
, pp. 517-527
-
-
Pokholok, D.K.1
Harbison, C.T.2
Levine, S.3
Cole, M.4
Hannett, N.M.5
Tong, I.L.6
Bell, G.W.7
Walker, K.8
Rolfe, P.A.9
Herbolsheimer, E.10
Zeitlinger, J.11
Lewitter, F.12
Gifford, D.K.13
Young, R.A.14
-
4
-
-
26444508841
-
Single-nucleosome mapping of histone modifications in S. cerevisiae
-
Liu CL, Kaplan T, Kim M, et al. Single-nucleosome mapping of histone modifications in S. cerevisiae. PLoS Biol. 2005;3(10):e328.
-
(2005)
PLoS Biol
, vol.3
, Issue.10
-
-
Liu, C.L.1
Kaplan, T.2
Kim, M.3
-
5
-
-
33750488431
-
The genomic landscape of histone modifications in human T cells
-
DOI 10.1073/pnas.0607617103
-
Roh TY, Cuddapah S, Cui K, Zhao K. The genomic landscape of histone modifications in human T cells. Proc Natl Acad Sci U S A. 2006; 103(43):15782-15787. (Pubitemid 44657544)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.43
, pp. 15782-15787
-
-
Roh, T.-Y.1
Cuddapah, S.2
Cui, K.3
Zhao, K.4
-
6
-
-
76249101323
-
PML-RARalpha/RXR alters the epigenetic landscape in acute promyelocytic leukemia
-
Martens JH, Brinkman AB, Simmer F, et al. PML-RARalpha/RXR alters the epigenetic landscape in acute promyelocytic leukemia. Cancer Cell. 2010;17(2):173-185.
-
(2010)
Cancer Cell
, vol.17
, Issue.2
, pp. 173-185
-
-
Martens, J.H.1
Brinkman, A.B.2
Simmer, F.3
-
7
-
-
17444390135
-
Chromatin modifying activity of leukaemia associated fusion proteins
-
DOI 10.1093/hmg/ddi109
-
Di Croce L. Chromatin modifying activity of leukaemia associated fusion proteins. Hum Mol Genet. 2005;14 Spec No 1:R77-R84. (Pubitemid 40542623)
-
(2005)
Human Molecular Genetics
, vol.14
, Issue.SPEC. ISS. 1
-
-
Di, C.L.1
-
8
-
-
20444403749
-
Intrinsic histone-DNA interactions and low nucleosome density are important for preferential accessibility of promoter regions in yeast
-
DOI 10.1016/j.molcel.2005.05.003, PII S1097276505013092
-
Sekinger EA, Moqtaderi Z, Struhl K. Intrinsic histone-DNA interactions and low nucleosome density are important for preferential accessibility of promoter regions in yeast. Mol Cell. 2005; 18(6):735-748. (Pubitemid 40804808)
-
(2005)
Molecular Cell
, vol.18
, Issue.6
, pp. 735-748
-
-
Sekinger, E.A.1
Moqtaderi, Z.2
Struhl, K.3
-
9
-
-
0023899769
-
Nuclease hypersensitive sites in chromatin
-
Gross DS, Garrard WT. Nuclease hypersensitive sites in chromatin. Annu Rev Biochem. 1988;57: 159-197.
-
(1988)
Annu Rev Biochem
, vol.57
, pp. 159-197
-
-
Gross, D.S.1
Garrard, W.T.2
-
10
-
-
0019303186
-
The 5' ends of Drosophila heat shock genes in chromatin are hypersensitive to DNase I
-
DOI 10.1038/286854a0
-
Wu C. The 5′ ends of Drosophila heat shock genes in chromatin are hypersensitive to DNase I. Nature. 1980;286(5776):854-860. (Pubitemid 10010150)
-
(1980)
Nature
, vol.286
, Issue.5776
, pp. 854-860
-
-
Wu, C.1
-
11
-
-
33745409293
-
DNase-chip: A high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
-
DOI 10.1038/nmeth888, PII N888
-
Crawford GE, Davis S, Scacheri PC, et al. DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays. Nat Methods. 2006;3(7):503-509. (Pubitemid 43941767)
-
(2006)
Nature Methods
, vol.3
, Issue.7
, pp. 503-509
-
-
Crawford, G.E.1
Davis, S.2
Scacheri, P.C.3
Renaud, G.4
Halawi, M.J.5
Erdos, M.R.6
Green, R.7
Meltzer, P.S.8
Wolfsberg, T.G.9
Collins, F.S.10
-
12
-
-
38649099445
-
High-Resolution Mapping and Characterization of Open Chromatin across the Genome
-
DOI 10.1016/j.cell.2007.12.014, PII S0092867407016133
-
Boyle AP, Davis S, Shulha HP, et al. Highresolution mapping and characterization of open chromatin across the genome. Cell. 2008;132(2): 311-322. (Pubitemid 351172431)
-
(2008)
Cell
, vol.132
, Issue.2
, 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
-
13
-
-
61749088375
-
NA-Seq: A discovery tool for the analysis of chromatin structure and dynamics during differentiation
-
Gargiulo G, Levy S, Bucci G, et al. NA-Seq: a discovery tool for the analysis of chromatin structure and dynamics during differentiation. Dev Cell. 2009;16(3):466-481.
-
(2009)
Dev Cell
, vol.16
, Issue.3
, pp. 466-481
-
-
Gargiulo, G.1
Levy, S.2
Bucci, G.3
-
14
-
-
79952184341
-
Chromatin accessibility pre-determines glucocorticoid receptor binding patterns
-
John S, Sabo PJ, Thurman RE, et al. Chromatin accessibility pre-determines glucocorticoid receptor binding patterns. Nat Genet. 2011;43(3):264-268.
-
(2011)
Nat Genet
, vol.43
, Issue.3
, pp. 264-268
-
-
John, S.1
Sabo, P.J.2
Thurman, R.E.3
-
15
-
-
34250369627
-
FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin
-
DOI 10.1101/gr.5533506
-
Giresi PG, Kim J, McDaniell RM, Iyer VR, Lieb JD. FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin. Genome Res. 2007;17(6):877-885. (Pubitemid 46919722)
-
(2007)
Genome Research
, vol.17
, Issue.6
, pp. 877-885
-
-
Giresi, P.G.1
Kim, J.2
McDaniell, R.M.3
Iyer, V.R.4
Lieb, J.D.5
-
16
-
-
77649086970
-
A map of open chromatin in human pancreatic islets
-
Gaulton KJ, Nammo T, Pasquali L, et al. A map of open chromatin in human pancreatic islets. Nat Genet. 2010;42(3):255-259.
-
(2010)
Nat Genet
, vol.42
, Issue.3
, pp. 255-259
-
-
Gaulton, K.J.1
Nammo, T.2
Pasquali, L.3
-
17
-
-
79951681879
-
Genome-wide functions of PML-RARalpha in acute promyelocytic leukaemia
-
Saeed S, Logie C, Stunnenberg HG, Martens JH. Genome-wide functions of PML-RARalpha in acute promyelocytic leukaemia. Br J Cancer. 2011;104(4):554-558.
-
(2011)
Br J Cancer
, vol.104
, Issue.4
, pp. 554-558
-
-
Saeed, S.1
Logie, C.2
Stunnenberg, H.G.3
Martens, J.H.4
-
18
-
-
76249120854
-
PML/RARalpha targets promoter regions containing PU.1 consensus and RARE half sites in acute promyelocytic leukemia
-
Wang K, Wang P, Shi J, et al. PML/RARalpha targets promoter regions containing PU.1 consensus and RARE half sites in acute promyelocytic leukemia. Cancer Cell. 2010;17(2):186-197.
-
(2010)
Cancer Cell
, vol.17
, Issue.2
, pp. 186-197
-
-
Wang, K.1
Wang, P.2
Shi, J.3
-
19
-
-
64549138827
-
A library-based method to rapidly analyse chromatin accessibility at multiple genomic regions
-
Basheer A, Berger H, Reyes-Dominguez Y, Gorfer M, Strauss J. A library-based method to rapidly analyse chromatin accessibility at multiple genomic regions. Nucleic Acids Res. 2009;37(6): e42.
-
(2009)
Nucleic Acids Res
, vol.37
, Issue.6
-
-
Basheer, A.1
Berger, H.2
Reyes-Dominguez, Y.3
Gorfer, M.4
Strauss, J.5
-
20
-
-
77449153454
-
Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution
-
Gu H, Bock C, Mikkelsen TS, et al. Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution. Nat Methods. 2010;7(2):133-136.
-
(2010)
Nat Methods
, vol.7
, Issue.2
, pp. 133-136
-
-
Gu, H.1
Bock, C.2
Mikkelsen, T.S.3
-
21
-
-
77957937011
-
Quantitative comparison of genome-wide DNA methylation mapping technologies
-
Bock C, Tomazou EM, Brinkman AB, et al. Quantitative comparison of genome-wide DNA methylation mapping technologies. Nat Biotechnol. 2010;28(10):1106-1114.
-
(2010)
Nat Biotechnol
, vol.28
, Issue.10
, pp. 1106-1114
-
-
Bock, C.1
Tomazou, E.M.2
Brinkman, A.B.3
-
23
-
-
84855415240
-
CATCHprofiles: Clustering and alignment tool for ChIP profiles
-
Nielsen FG, Markus KG, Friborg RM, Favrholdt LM, Stunnenberg HG, Huynen M. CATCHprofiles: clustering and alignment tool for ChIP profiles. PLoS One. 2012;7(1):e28272.
-
(2012)
PLoS One
, vol.7
, Issue.1
-
-
Nielsen, F.G.1
Markus, K.G.2
Friborg, R.M.3
Favrholdt, L.M.4
Stunnenberg, H.G.5
Huynen, M.6
-
24
-
-
54949147307
-
F-Seq: A feature density estimator for high-throughput sequence tags
-
Boyle AP, Guinney J, Crawford GE, Furey TS. F-Seq: a feature density estimator for high-throughput sequence tags. Bioinformatics. 2008; 24(21):2537-2538.
-
(2008)
Bioinformatics
, vol.24
, Issue.21
, pp. 2537-2538
-
-
Boyle, A.P.1
Guinney, J.2
Crawford, G.E.3
Furey, T.S.4
-
25
-
-
0026013478
-
NB4, a maturation inducible cell line with t(15;17) marker isolated from a human acute promyelocytic leukemia (M3)
-
Lanotte M, Martin-Thouvenin V, Najman S, Balerini P, Valensi F, Berger R. NB4, a maturation inducible cell line with t(15;17) marker isolated from a human acute promyelocytic leukemia (M3). Blood. 1991;77(5):1080-1086.
-
(1991)
Blood
, vol.77
, Issue.5
, pp. 1080-1086
-
-
Lanotte, M.1
Martin-Thouvenin, V.2
Najman, S.3
Balerini, P.4
Valensi, F.5
Berger, R.6
-
26
-
-
80053539409
-
Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity
-
Song L, Zhang Z, Grasfeder LL, et al. Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. Genome Res. 2011;21(10):1757-1767.
-
(2011)
Genome Res
, vol.21
, Issue.10
, pp. 1757-1767
-
-
Song, L.1
Zhang, Z.2
Grasfeder, L.L.3
-
27
-
-
0025875679
-
The PML-RARalpha fusion mRNA generated by the t(15;17) translocation in acute promyelocytic leukemia encodes a functionally altered RAR
-
de The H, Lavau C, Marchio A, Chomienne C, Degos L, Dejean A. The PML-RAR alpha fusion mRNA generated by the t(15;17) translocation in acute promyelocytic leukemia encodes a functionally altered RAR. Cell. 1991;66(4):675-684. (Pubitemid 121001703)
-
(1991)
Cell
, vol.66
, Issue.4
, pp. 675-684
-
-
De The, H.1
Lavau, C.2
Marchio, A.3
Chomienne, C.4
Degos, L.5
Dejean, A.6
-
28
-
-
32044437861
-
Recruitment of the histone methyltransferase SUV39H1 and its role in the oncogenic properties of the leukemia-associated PML-retinoic acid receptor fusion protein
-
DOI 10.1128/MCB.26.4.1288-1296.2006
-
Carbone R, Botrugno OA, Ronzoni S, et al. Recruitment of the histone methyltransferase SUV39H1 and its role in the oncogenic properties of the leukemia-associated PML-retinoic acid receptor fusion protein. Mol Cell Biol. 2006;26(4): 1288-1296. (Pubitemid 43202556)
-
(2006)
Molecular and Cellular Biology
, vol.26
, Issue.4
, pp. 1288-1296
-
-
Carbone, R.1
Botrugno, O.A.2
Ronzoni, S.3
Insinga, A.4
Di, C.L.5
Pelicci, P.G.6
Minucci, S.7
-
29
-
-
34249869559
-
Role of the Polycomb Repressive Complex 2 in Acute Promyelocytic Leukemia
-
DOI 10.1016/j.ccr.2007.04.009, PII S153561080700116X
-
Villa R, Pasini D, Gutierrez A, et al. Role of the polycomb repressive complex 2 in acute promyelocytic leukemia. Cancer Cell. 2007;11(6):513-525. (Pubitemid 46863505)
-
(2007)
Cancer Cell
, vol.11
, Issue.6
, pp. 513-525
-
-
Villa, R.1
Pasini, D.2
Gutierrez, A.3
Morey, L.4
Occhionorelli, M.5
Vire, E.6
Nomdedeu, J.F.7
Jenuwein, T.8
Pelicci, P.G.9
Minucci, S.10
Fuks, F.11
Helin, K.12
Di, C.L.13
-
30
-
-
0019407488
-
Terminal differentiation of human promyelocytic leukemic cells in primary culture in response to retinoic acid
-
Breitman TR, Collins SJ, Keene BR. Terminal differentiation of human promyelocytic leukemic cells in primary culture in response to retinoic acid. Blood. 1981;57(6):1000-1004. (Pubitemid 11050800)
-
(1981)
Blood
, vol.57
, Issue.6
, pp. 1000-1004
-
-
Breitman, T.R.1
Collins, S.J.2
Keene, B.R.3
-
31
-
-
48749089460
-
PU.1 expression is modulated by the balance of functional sense and antisense RNAs regulated by a shared cis-regulatory element
-
Ebralidze AK, Guibal FC, Steidl U, et al. PU.1 expression is modulated by the balance of functional sense and antisense RNAs regulated by a shared cis-regulatory element. Genes Dev. 2008; 22(15):2085-2092.
-
(2008)
Genes Dev
, vol.22
, Issue.15
, pp. 2085-2092
-
-
Ebralidze, A.K.1
Guibal, F.C.2
Steidl, U.3
-
32
-
-
23844519339
-
A high-resolution map of active promoters in the human genome
-
DOI 10.1038/nature03877
-
Kim TH, Barrera LO, Zheng M, et al. A high-resolution map of active promoters in the human genome. Nature. 2005;436(7052):876-880. (Pubitemid 41160649)
-
(2005)
Nature
, vol.436
, Issue.7052
, pp. 876-880
-
-
Kim, T.H.1
Barrera, L.O.2
Zheng, M.3
Qu, C.4
Singer, M.A.5
Richmond, T.A.6
Wu, Y.7
Green, R.D.8
Ren, B.9
-
33
-
-
60149091656
-
ChIP-seq accurately predicts tissue-specific activity of enhancers
-
Visel A, Blow MJ, Li Z, et al. ChIP-seq accurately predicts tissue-specific activity of enhancers. Nature. 2009;457(7231):854-858.
-
(2009)
Nature
, vol.457
, Issue.7231
, pp. 854-858
-
-
Visel, A.1
Blow, M.J.2
Li, Z.3
-
34
-
-
34548441932
-
Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome
-
Xi H, Shulha HP, Lin JM, et al. Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. PLoS Genet. 2007;3(8):e136.
-
(2007)
PLoS Genet
, vol.3
, Issue.8
-
-
Xi, H.1
Shulha, H.P.2
Lin, J.M.3
-
35
-
-
65549104157
-
Histone modifications at human enhancers reflect global cell-type-specific gene expression
-
Heintzman ND, Hon GC, Hawkins RD, et al. Histone modifications at human enhancers reflect global cell-type-specific gene expression. Nature. 2009;459(7243):108-112.
-
(2009)
Nature
, vol.459
, Issue.7243
, pp. 108-112
-
-
Heintzman, N.D.1
Hon, G.C.2
Hawkins, R.D.3
-
36
-
-
71749120382
-
Finding distal regulatory elements in the human genome
-
Heintzman ND, Ren B. Finding distal regulatory elements in the human genome. Curr Opin Genet Dev. 2009;19(6):541-549.
-
(2009)
Curr Opin Genet Dev
, vol.19
, Issue.6
, pp. 541-549
-
-
Heintzman, N.D.1
Ren, B.2
-
37
-
-
84867754489
-
ERG and FLI1 binding sites demarcate targets for aberrant epigenetic regulation by AML1-ETO in acute myeloid leukemia
-
[published online ahead of print September 14, 2012]. doi: 10.1182/blood-2012-05-429050
-
Martens JH, Mandoli A, Simmer F, et al. ERG and FLI1 binding sites demarcate targets for aberrant epigenetic regulation by AML1-ETO in acute myeloid leukemia [published online ahead of print September 14, 2012]. Blood. doi: 10.1182/blood-2012-05-429050.
-
Blood
-
-
Martens, J.H.1
Mandoli, A.2
Simmer, F.3
-
38
-
-
53849146020
-
Model-based analysis of ChIP-Seq (MACS)
-
Zhang Y, Liu T, Meyer CA, et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008;9(9):R137.
-
(2008)
Genome Biol
, vol.9
, Issue.9
-
-
Zhang, Y.1
Liu, T.2
Meyer, C.A.3
-
39
-
-
0029843938
-
Chromatin structure and gene expression
-
DOI 10.1073/pnas.93.18.9384
-
Felsenfeld G, Boyes J, Chung J, Clark D, Studitsky V. Chromatin structure and gene expression. Proc Natl Acad Sci U S A. 1996;93(18): 9384-9388. (Pubitemid 26296616)
-
(1996)
Proceedings of the National Academy of Sciences of the United States of America
, vol.93
, Issue.18
, pp. 9384-9388
-
-
Felsenfeld, G.1
Boyes, J.2
Chung, J.3
Clark, D.4
Studitsky, V.5
-
40
-
-
0017142124
-
Chromosomal subunits in active genes have an altered conformation
-
Weintraub H, Groudine M. Chromosomal subunits in active genes have an altered conformation. Science. 1976;193(4256):848-856.
-
(1976)
Science
, vol.193
, Issue.4256
, pp. 848-856
-
-
Weintraub, H.1
Groudine, M.2
-
41
-
-
3543023310
-
Evidence for nucleosome depletion at active regulatory regions genome-wide
-
DOI 10.1038/ng1400
-
Lee CK, Shibata Y, Rao B, Strahl BD, Lieb JD. Evidence for nucleosome depletion at active regulatory regions genome-wide. Nat Genet. 2004;36(8):900-905. (Pubitemid 39014111)
-
(2004)
Nature Genetics
, vol.36
, Issue.8
, pp. 900-905
-
-
Lee, C.-K.1
Shibata, Y.2
Rao, B.3
Strahl, B.D.4
Lieb, J.D.5
-
42
-
-
80051470522
-
The leukemogenicity of AML1-ETO is dependent on site-specific lysine acetylation
-
Wang L, Gural A, Sun XJ, et al. The leukemogenicity of AML1-ETO is dependent on site-specific lysine acetylation. Science. 2011;333(6043):765-769.
-
(2011)
Science
, vol.333
, Issue.6043
, pp. 765-769
-
-
Wang, L.1
Gural, A.2
Sun, X.J.3
-
43
-
-
84863261933
-
Genome-wide analysis of histone H3 acetylation patterns in AML identifies PRDX2 as an epigenetically silenced tumor suppressor gene
-
Agrawal-Singh S, Isken F, Agelopoulos K, et al. Genome-wide analysis of histone H3 acetylation patterns in AML identifies PRDX2 as an epigenetically silenced tumor suppressor gene. Blood. 2012;119(10):2346-2357.
-
(2012)
Blood
, vol.119
, Issue.10
, pp. 2346-2357
-
-
Agrawal-Singh, S.1
Isken, F.2
Agelopoulos, K.3
-
44
-
-
69449102464
-
Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes
-
Wang Z, Zang C, Cui K, et al. Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes. Cell. 2009; 138(5):1019-1031.
-
(2009)
Cell
, vol.138
, Issue.5
, pp. 1019-1031
-
-
Wang, Z.1
Zang, C.2
Cui, K.3
-
45
-
-
84856962477
-
Enhancer decommissioning by LSD1 during embryonic stem cell differentiation
-
Whyte WA, Bilodeau S, Orlando DA, et al. Enhancer decommissioning by LSD1 during embryonic stem cell differentiation. Nature. 2012; 482(7384):221-225.
-
(2012)
Nature
, vol.482
, Issue.7384
, pp. 221-225
-
-
Whyte, W.A.1
Bilodeau, S.2
Orlando, D.A.3
-
46
-
-
79952396960
-
Chemoproteomics profiling of HDAC inhibitors reveals selective targeting of HDAC complexes
-
Bantscheff M, Hopf C, Savitski MM, et al. Chemoproteomics profiling of HDAC inhibitors reveals selective targeting of HDAC complexes. Nat Biotechnol. 2011;29(3):255-265.
-
(2011)
Nat Biotechnol
, vol.29
, Issue.3
, pp. 255-265
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-
Bantscheff, M.1
Hopf, C.2
Savitski, M.M.3
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