-
1
-
-
34250794495
-
XBP1 controls diverse cell type- and condition-specific transcriptional regulatory networks
-
Acosta-Alvear, D., Zhou, Y., Blais, A., Tsikitis, M., Lents, N.H., Arias, C., Lennon, C.J., Kluger, Y., and Dynlacht, B.D. 2007. XBP1 controls diverse cell type- and condition-specific transcriptional regulatory networks. Mol. Cell 27: 53-66.
-
(2007)
Mol. Cell
, vol.27
, pp. 53-66
-
-
Acosta-Alvear, D.1
Zhou, Y.2
Blais, A.3
Tsikitis, M.4
Lents, N.H.5
Arias, C.6
Lennon, C.J.7
Kluger, Y.8
Dynlacht, B.D.9
-
2
-
-
34249026300
-
High-resolution profiling of histone methylations in the human genome
-
Barski, A., Cuddapah, S., Cm, K., Roll, T.Y., Schones, D.E., Wang, Z., Wei, G., Chepelev, I., and Zhao, K. 2007. High-resolution profiling of histone methylations in the human genome. Cell 129: 823-837.
-
(2007)
Cell
, vol.129
, pp. 823-837
-
-
Barski, A.1
Cuddapah, S.2
Cm, K.3
Roll, T.Y.4
Schones, D.E.5
Wang, Z.6
Wei, G.7
Chepelev, I.8
Zhao, K.9
-
3
-
-
0036168865
-
Methvlation at arginine 17 of histone H3 is linked to gene activation
-
Bauer, U.M., Daujat, S., Nielsen, S.J., Nightingale, K., and Kouzarides, T. 2002, Methvlation at arginine 17 of histone H3 is linked to gene activation. EMBO Rep. 3: 39-44.
-
(2002)
EMBO Rep
, vol.3
, pp. 39-44
-
-
Bauer, U.M.1
Daujat, S.2
Nielsen, S.J.3
Nightingale, K.4
Kouzarides, T.5
-
4
-
-
34249299791
-
The complex language of chromatin regulation during transcription
-
Berger, S.L. 2007. The complex language of chromatin regulation during transcription. Nature 447: 407-412.
-
(2007)
Nature
, vol.447
, pp. 407-412
-
-
Berger, S.L.1
-
5
-
-
33745140886
-
Unbiased location analysis of E2Fl-binding sites suggests a widespread role for E2F1 in the human genome
-
Bieda, M., Xu, X., Singer, M.A., Green, R., and Farnham, P.j. 2006. Unbiased location analysis of E2Fl-binding sites suggests a widespread role for E2F1 in the human genome. Genome Res. 16: 595-605.
-
(2006)
Genome Res
, vol.16
, pp. 595-605
-
-
Bieda, M.1
Xu, X.2
Singer, M.A.3
Green, R.4
Farnham, P.J.5
-
6
-
-
34547931715
-
Cell- and gene-specific regulation of primary target genes by the androgen receptor
-
Bolton, E.C., So, A.Y., Chaivorapol, C., Haqq, C.M., Li, H., and Yamamoto, K.R. 2007. Cell- and gene-specific regulation of primary target genes by the androgen receptor. Genes & Dev. 21: 2005-2017.
-
(2007)
Genes & Dev
, vol.21
, pp. 2005-2017
-
-
Bolton, E.C.1
So, A.Y.2
Chaivorapol, C.3
Haqq, C.M.4
Li, H.5
Yamamoto, K.R.6
-
7
-
-
38649099445
-
High-resolution mapping and characterization of open chromatin across the genome
-
Boyle, A.P., Davis, S., Shulha, H.P., Meltzer, P., Margulies, E.H., Weng, Z., Furey, T.S., and Crawford, G.E. 2008. High-resolution mapping and characterization of open chromatin across the genome. Cell 132: 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
-
8
-
-
24344480877
-
Developmental control via GATA factor interplay at chromatin domains
-
Bresnick, E.H., Martowicz, M.L., Pal, S., and Johnson, K.D. 2005. Developmental control via GATA factor interplay at chromatin domains. J. Cell. Physiol. 205: 1-9.
-
(2005)
J. Cell. Physiol
, vol.205
, pp. 1-9
-
-
Bresnick, E.H.1
Martowicz, M.L.2
Pal, S.3
Johnson, K.D.4
-
9
-
-
22144486551
-
Chromosome-wide mapping of estrogen receptor binding reveals long- range regulation requiring the forkhead protein FoxAl
-
Carroll, J.S., Liu, X.S., Brodsky, A.S., Li, W., Meyer, C.A., Szary, A.J., Eeckhoute, J., Shao, W., Hestermann, E.V., Geistlinger, T.R., et al. 2005. Chromosome-wide mapping of estrogen receptor binding reveals long- range regulation requiring the forkhead protein FoxAl. Cell 122: 33-43.
-
(2005)
Cell
, vol.122
, pp. 33-43
-
-
Carroll, J.S.1
Liu, X.S.2
Brodsky, A.S.3
Li, W.4
Meyer, C.A.5
Szary, A.J.6
Eeckhoute, J.7
Shao, W.8
Hestermann, E.V.9
Geistlinger, T.R.10
-
10
-
-
33750442923
-
Genome-wide analysis of estrogen receptor binding sites
-
Carroll, J.S., Mever, C.A., Song, J, Li, W., Geistlinger, T.R., Eeckhoute, J., Brodsky, A.S., Keeton, E.K., Fertuck, K.C., Hall, G.F., et al. 2006. Genome-wide analysis of estrogen receptor binding sites. Nat. Genet. 38: 1289-1297.
-
(2006)
Nat. Genet
, vol.38
, pp. 1289-1297
-
-
Carroll, J.S.1
Mever, C.A.2
Song, J.3
Li, W.4
Geistlinger, T.R.5
Eeckhoute, J.6
Brodsky, A.S.7
Keeton, E.K.8
Fertuck, K.C.9
Hall, G.F.10
-
11
-
-
55349125301
-
CCCTC-binding factor confines the distal action of estrogen receptor
-
Chan, C.S. and Song, J.S. 2008. CCCTC-binding factor confines the distal action of estrogen receptor. Cancer Res. 68: 9041-9049.
-
(2008)
Cancer Res
, vol.68
, pp. 9041-9049
-
-
Chan, C.S.1
Song, J.S.2
-
12
-
-
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, V.B., Wong, E., Orlov, Y.L., 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
-
13
-
-
0032472365
-
Binding of the winged-helix transcription factor HNF3 to a linker histone site on the nucleosome
-
Cirillo, L.A., McPherson, C.E., Bossard, P., Stevens, K., Cherian, S., Shim, E.Y., Clark, K.L., Burley, S.K., and Zaret, K.S. 1998. Binding of the winged-helix transcription factor HNF3 to a linker histone site on the nucleosome. EMBO J. 17: 244-254.
-
(1998)
EMBO J
, vol.17
, pp. 244-254
-
-
Cirillo, L.A.1
McPherson, C.E.2
Bossard, P.3
Stevens, K.4
Cherian, S.5
Shim, E.Y.6
Clark, K.L.7
Burley, S.K.8
Zaret, K.S.9
-
14
-
-
0036184236
-
Opening of compacted chromatin by early developmental transcription factors HNF3 (FoxA) and GATA-4
-
Cirillo, L.A., Lin, F.R., Cuesta, I., Friedman, D., Jarnik, M., and Zaret, K.S. 2002. Opening of compacted chromatin by early developmental transcription factors HNF3 (FoxA) and GATA-4. Mol. Cell 9: 279-289.
-
(2002)
Mol. Cell
, vol.9
, pp. 279-289
-
-
Cirillo, L.A.1
Lin, F.R.2
Cuesta, I.3
Friedman, D.4
Jarnik, M.5
Zaret, K.S.6
-
15
-
-
30044449116
-
Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS)
-
Crawford, G.E., Holt, I.E., Whittle, J., Webb, B.D., Tai, D., Davis, S., Margulies, E.H., Chen, Y., Bemat, J.A., Ginsburg, D., et al. 2006. Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS). Genome Res. 16: 123-131.
-
(2006)
Genome Res
, vol.16
, pp. 123-131
-
-
Crawford, G.E.1
Holt, I.E.2
Whittle, J.3
Webb, B.D.4
Tai, D.5
Davis, S.6
Margulies, E.H.7
Chen, Y.8
Bemat, J.A.9
Ginsburg, D.10
-
16
-
-
33748679908
-
A cell-type-specific transcriptional network required for estrogen regulation of cyclin Dl and cell cycle progression in breast cancer
-
Eeckhoute, J., Carroll, J.S., Geistlinger, T.R., Torres-Arzayus, M.I., and Brown, M. 2006. A cell-type-specific transcriptional network required for estrogen regulation of cyclin Dl and cell cycle progression in breast cancer. Genes & Dev. 20: 2513-2526.
-
(2006)
Genes & Dev
, vol.20
, pp. 2513-2526
-
-
Eeckhoute, J.1
Carroll, J.S.2
Geistlinger, T.R.3
Torres-Arzayus, M.I.4
Brown, M.5
-
17
-
-
34447130861
-
Positive cross-regulatory loop ties GATA-3 to estrogen receptor αexpression in breast cancer
-
Eeckhoute, J., Keeton, E.K., Lupien, M., Krum, S.A., Carroll, J.S., and Brown, M. 2007. Positive cross-regulatory loop ties GATA-3 to estrogen receptor αexpression in breast cancer. Cancer Res. 67: 6477-6483.
-
(2007)
Cancer Res
, vol.67
, pp. 6477-6483
-
-
Eeckhoute, J.1
Keeton, E.K.2
Lupien, M.3
Krum, S.A.4
Carroll, J.S.5
Brown, M.6
-
18
-
-
34250305146
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
The ENCODE Project Consortium
-
The ENCODE Project Consortium. 2007. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447: 799-816.
-
(2007)
Nature
, vol.447
, pp. 799-816
-
-
-
19
-
-
37849044154
-
GATA-1 modulates the chromatin structure and activity of the chicken α-globin 3′ enhancer
-
Escamilla-Del-Arenal, M. and Recillas-Targa, F. 2008. GATA-1 modulates the chromatin structure and activity of the chicken α-globin 3′ enhancer. Mol. Cell. Biol. 28: 575-586.
-
(2008)
Mol. Cell. Biol
, vol.28
, pp. 575-586
-
-
Escamilla-Del-Arenal, M.1
Recillas-Targa, F.2
-
20
-
-
33750438123
-
The Foxa family of transcription factors in development and metabolism
-
Friedman, J.R. and Kaestner, K.H. 2006. The Foxa family of transcription factors in development and metabolism. Cell. Mol. Life Sci. 63: 2317-2328.
-
(2006)
Cell. Mol. Life Sci
, vol.63
, pp. 2317-2328
-
-
Friedman, J.R.1
Kaestner, K.H.2
-
21
-
-
39149092383
-
CARM1 regulates estrogen-stimulated breast cancer growth through up-regulation of E2F1
-
Frietze, S., Lupien, M., Silver, P.A., and Brown, M. 2008. CARM1 regulates estrogen-stimulated breast cancer growth through up-regulation of E2F1. Cancer Res. 68: 301-306.
-
(2008)
Cancer Res
, vol.68
, pp. 301-306
-
-
Frietze, S.1
Lupien, M.2
Silver, P.A.3
Brown, M.4
-
22
-
-
38049007472
-
Genome-wide identification of estrogen receptor a-binding sites in mouse liver
-
Gao, H., Fait, S., Sandelin, A., Gustafsson, J.A., and Dahlman-Wright, K. 2008. Genome-wide identification of estrogen receptor a-binding sites in mouse liver. Mol. Endocrinol. 22: 10-22.
-
(2008)
Mol. Endocrinol
, vol.22
, pp. 10-22
-
-
Gao, H.1
Fait, S.2
Sandelin, A.3
Gustafsson, J.A.4
Dahlman-Wright, K.5
-
23
-
-
0042266417
-
The role of hepatocyte nuclear factor-3 a(Forkhead Box Al) and androgen receptor in transcriptional regulation of prostatic genes
-
Gao, N., Zhang, J., Rao, M.A., Case, T.C., Mirosevich, J., Wang, Y, Jin, R., Gupta, A., Rennie, P.S., and Matusik, R.J. 2003. The role of hepatocyte nuclear factor-3 a(Forkhead Box Al) and androgen receptor in transcriptional regulation of prostatic genes. Mol. Endocrinol. 17:1484- 1507.
-
(2003)
Mol. Endocrinol
, vol.17
, pp. 1484-1507
-
-
Gao, N.1
Zhang, J.2
Rao, M.A.3
Case, T.C.4
Mirosevich, J.5
Wang, Y.6
Jin, R.7
Gupta, A.8
Rennie, P.S.9
Matusik, R.J.10
-
24
-
-
34250369627
-
FA1RE (formaldehyde-assisted isolation of regulatory elements) isolates active regulatory elements from human chromatin
-
Giresi, P.G., Kim, J., McDaniell, R.M., Iyer, V.R., and Lieb, J.D. 2007. FA1RE (formaldehyde-assisted isolation of regulatory elements) isolates active regulatory elements from human chromatin. Genome Res. 17: 877-885.
-
(2007)
Genome Res
, vol.17
, pp. 877-885
-
-
Giresi, P.G.1
Kim, J.2
McDaniell, R.M.3
Iyer, V.R.4
Lieb, J.D.5
-
25
-
-
0029767664
-
Hepatic specification of the gut endoderm in vitro: Cell signaling and transcriptional control
-
Gualdi, R., Bossard, P., Zheng, M., Hamada, Y, Coleman, J.R., and Zaret, K.S. 1996. Hepatic specification of the gut endoderm in vitro: Cell signaling and transcriptional control. Genes & Dev. 10: 1670-1682.
-
(1996)
Genes & Dev
, vol.10
, pp. 1670-1682
-
-
Gualdi, R.1
Bossard, P.2
Zheng, M.3
Hamada, Y.4
Coleman, J.R.5
Zaret, K.S.6
-
26
-
-
33847334699
-
Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
-
Heintzman, N.D., Stuart, R.K., Hon, G., Fu, Y., Ching, C.W., Hawkins, R.D., Barrera, L.O., Van Calcar, S., Qu, C., Ching, K.A., 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
-
27
-
-
33749406106
-
Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters
-
doi: 10.1371/joumal.pgen.0020158
-
Hogan, G.J., Lee, C.K., and Lieb, J.D. 2006. Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters. PLoS Genet. 2: el58. doi: 10.1371/joumal.pgen.0020158.
-
(2006)
PLoS Genet
, vol.2
-
-
Hogan, G.J.1
Lee, C.K.2
Lieb, J.D.3
-
28
-
-
42149103735
-
Genomic analysis of estrogen cascade reveals histone variant H2A.Z associated with breast cancer progression
-
doi: 10.1038/msb.2008.25
-
Hua, S., Kallen, C.B., Dhar, R., Baquero, M.T., Mason, C.E., Russell, B.A., Shah, P.K., Liu, J., Khramtsov, A., Tretiakova, M.S., et al. 2008. Genomic analysis of estrogen cascade reveals histone variant H2A.Z associated with breast cancer progression. Mol. Syst. Biol. 4: 188. doi: 10.1038/msb.2008.25.
-
(2008)
Mol. Syst. Biol
, vol.4
, pp. 188
-
-
Hua, S.1
Kallen, C.B.2
Dhar, R.3
Baquero, M.T.4
Mason, C.E.5
Russell, B.A.6
Shah, P.K.7
Liu, J.8
Khramtsov, A.9
Tretiakova, M.S.10
-
29
-
-
40649106738
-
Interaction of the glucocorticoid receptor with the chromatin landscape
-
John, S., Sabo, P.J., Johnson, T.A., Sung, M.H., Biddie, S.C., Lightman, S.L., Voss, T.C., Davis, S.R., Meltzer, P.S., Stamatoyannopoulos, J.A., et al. 2008. Interaction of the glucocorticoid receptor with the chromatin landscape. Mol. Cell 29: 611-624.
-
(2008)
Mol. Cell
, vol.29
, pp. 611-624
-
-
John, S.1
Sabo, P.J.2
Johnson, T.A.3
Sung, M.H.4
Biddie, S.C.5
Lightman, S.L.6
Voss, T.C.7
Davis, S.R.8
Meltzer, P.S.9
Stamatoyannopoulos, J.A.10
-
30
-
-
33747587864
-
Model-based analysis of tiling-arrays for ChlP-chip
-
Johnson, W.E., Li, W., Meyer, C.A., Gottardo, R., Carroll, J.S., Brown, M., and Liu, X.S. 2006. Model-based analysis of tiling-arrays for ChlP-chip. Proc. Natl. Acad. Sci. 103: 12457-12462.
-
(2006)
Proc. Natl. Acad. Sci
, vol.103
, pp. 12457-12462
-
-
Johnson, W.E.1
Li, W.2
Meyer, C.A.3
Gottardo, R.4
Carroll, J.S.5
Brown, M.6
Liu, X.S.7
-
31
-
-
33947201809
-
Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome
-
Kim, T.H., Abdullaev, Z.K., Smith, A.D., Ching, K.A., Loukinov, D.I., Green, R.D., Zhang, M.Q., Lobanenkov, V.V., and Ren, B. 2007. Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome. Cell 128: 1231-1245.
-
(2007)
Cell
, vol.128
, pp. 1231-1245
-
-
Kim, T.H.1
Abdullaev, Z.K.2
Smith, A.D.3
Ching, K.A.4
Loukinov, D.I.5
Green, R.D.6
Zhang, M.Q.7
Lobanenkov, V.V.8
Ren, B.9
-
32
-
-
40749104852
-
An extended transcriptional network for pluripotency of embryonic stem cells
-
Kim, J., Chu, J., Shen, X., Wang, J., and Orkin, S.H. 2008. An extended transcriptional network for pluripotency of embryonic stem cells. Cell 132: 1049-1061.
-
(2008)
Cell
, vol.132
, pp. 1049-1061
-
-
Kim, J.1
Chu, J.2
Shen, X.3
Wang, J.4
Orkin, S.H.5
-
33
-
-
41649121741
-
Using ChlP-chip technology to reveal common principles of transcriptional repression in normal and cancer cells
-
Komashko, V.M., Acevedo, L.G., Squazzo, S.L., Iyengar, S.S., Rabinovich, A., O'Geen, H., Green, R., and Farnham, P.J. 2008. Using ChlP-chip technology to reveal common principles of transcriptional repression in normal and cancer cells. Genome Res. 18: 521-532.
-
(2008)
Genome Res
, vol.18
, pp. 521-532
-
-
Komashko, V.M.1
Acevedo, L.G.2
Squazzo, S.L.3
Iyengar, S.S.4
Rabinovich, A.5
O'Geen, H.6
Green, R.7
Farnham, P.J.8
-
34
-
-
33847076849
-
Chromatin modifications and their function
-
Kouzarides, T. 2007. Chromatin modifications and their function. Cell 128: 693-705.
-
(2007)
Cell
, vol.128
, pp. 693-705
-
-
Kouzarides, T.1
-
35
-
-
55049107572
-
Unique ERα cistromes control cell type-specific gene regulation
-
Krum, S.A., Miranda-Carboni, G.A., Lupien, M., Eeckhoute, J., Carroll, J.S., and Brown, M. 2008. Unique ERα cistromes control cell type-specific gene regulation. Mol. Endocrinol. 22: 2393-2406.
-
(2008)
Mol. Endocrinol
, vol.22
, pp. 2393-2406
-
-
Krum, S.A.1
Miranda-Carboni, G.A.2
Lupien, M.3
Eeckhoute, J.4
Carroll, J.S.5
Brown, M.6
-
36
-
-
23844485897
-
Location analysis of estrogen receptor a target promoters reveals that FOXA1 defines a domain of the estrogen response
-
Laganiere, J., Deblois, G., Lefebvre, C., Bataille, A.R., Robert, F., and Giguere, V. 2005. Location analysis of estrogen receptor a target promoters reveals that FOXA1 defines a domain of the estrogen response. Proc. Natl. Acad. Sci. 102: 11651-11656.
-
(2005)
Proc. Natl. Acad. Sci
, vol.102
, pp. 11651-11656
-
-
Laganiere, J.1
Deblois, G.2
Lefebvre, C.3
Bataille, A.R.4
Robert, F.5
Giguere, V.6
-
37
-
-
20544473735
-
The initiation of liver development is dependent on Foxa transcription factors
-
Lee, C.S., Friedman, J.R., Fulmer, J.T., and Kaestner, K.H. 2005. The initiation of liver development is dependent on Foxa transcription factors. Nature 435: 944-947.
-
(2005)
Nature
, vol.435
, pp. 944-947
-
-
Lee, C.S.1
Friedman, J.R.2
Fulmer, J.T.3
Kaestner, K.H.4
-
38
-
-
34347345081
-
Whole-genome cartographv of estrogen receptor α binding sites
-
doi:10.13711/journal/pgen.0030087
-
Lin, C.Y., Vega, V.B., Thomsen, J.S., Zhang, T., Kong, S.L., Xie, M., Chiu, K.P., Lipovich, L., Barnett, D.H., Stossi, E, et al. 2007. Whole-genome cartographv of estrogen receptor α binding sites. PLoS Genet. 3: e87. doi:10.13711/journal/pgen.0030087.
-
(2007)
PLoS Genet
, vol.3
-
-
Lin, C.Y.1
Vega, V.B.2
Thomsen, J.S.3
Zhang, T.4
Kong, S.L.5
Xie, M.6
Chiu, K.P.7
Lipovich, L.8
Barnett, D.H.9
Stossi, E.10
-
39
-
-
40849085514
-
FoxAl translates epigenetic signatures into enhancer-driven lineage-specific transcription
-
Lupien, M., Eeckhoute, J., Meyer, C.A., Wang, Q., Zhang, Y., Li, W., Carroll, J.S., Liu, X.S., and Brown, M. 2008. FoxAl translates epigenetic signatures into enhancer-driven lineage-specific transcription. Cell 132: 958-970.
-
(2008)
Cell
, vol.132
, pp. 958-970
-
-
Lupien, M.1
Eeckhoute, J.2
Meyer, C.A.3
Wang, Q.4
Zhang, Y.5
Li, W.6
Carroll, J.S.7
Liu, X.S.8
Brown, M.9
-
40
-
-
2642544592
-
Estrogen receptor-a directs ordered, cyclical, and combinatorial recruitment of cofactors on a natural target promoter
-
Metivier, R., Penot, G., Flubner, M.R., Reid, G., Brand, H., Kos, M., and Gannon, F. 2003. Estrogen receptor-a directs ordered, cyclical, and combinatorial recruitment of cofactors on a natural target promoter. Cell 115: 751-763.
-
(2003)
Cell
, vol.115
, pp. 751-763
-
-
Metivier, R.1
Penot, G.2
Flubner, M.R.3
Reid, G.4
Brand, H.5
Kos, M.6
Gannon, F.7
-
41
-
-
34547624303
-
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
-
Mikkelsen, T.S., Ku, M., Jaffe, D.B., Issac, B., Lieberrnan, E., Giannoukos, G., Alvarez, P., Brockman, W., Kim, T.K., Koche, R.P., 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
Lieberrnan, E.5
Giannoukos, G.6
Alvarez, P.7
Brockman, W.8
Kim, T.K.9
Koche, R.P.10
-
42
-
-
33845789120
-
The activity and stability of the transcriptional coactivator p/CIP/SRC-3 are regulated by CARMl-dependent methvlation
-
Naeem, H., Cheng, D., Zhao, Q., Underhill, C., Tini, M., Bedford, M.T., and Torchia, J. 2007. The activity and stability of the transcriptional coactivator p/CIP/SRC-3 are regulated by CARMl-dependent methvlation. Mol. Cell. Biol. 27:120-134.
-
(2007)
Mol. Cell. Biol
, vol.27
, pp. 120-134
-
-
Naeem, H.1
Cheng, D.2
Zhao, Q.3
Underhill, C.4
Tini, M.5
Bedford, M.T.6
Torchia, J.7
-
43
-
-
46349097210
-
Integrative genome-wide expression analysis bears evidence of estrogen receptor-independent transcription in heregulin-stimulated MCF-7 cells
-
doi: 10.1371/joumal.pone.0001803
-
Nagashima, X, Suzuki, T., Kondo, S., Kuroki, Y., Takahashi, K., lde, K., Yumoto, N., Hasegawa, A., Toyoda, T, Kojima, T, et al. 2008. Integrative genome-wide expression analysis bears evidence of estrogen receptor-independent transcription in heregulin-stimulated MCF-7 cells. PLoS One 3: el803. doi: 10.1371/joumal.pone.0001803.
-
(2008)
PLoS One
, vol.3
-
-
Nagashima, X.1
Suzuki, T.2
Kondo, S.3
Kuroki, Y.4
Takahashi, K.5
lde, K.6
Yumoto, N.7
Hasegawa, A.8
Toyoda, T.9
Kojima, T.10
-
44
-
-
0038652118
-
Genomewide demarcation of RNA polymerase II transcription units revealed by physical fractionation of chromatin
-
Nagy, P.L., Cleary, M.L., Brown, P.O., and Lieb, J.D. 2003. Genomewide demarcation of RNA polymerase II transcription units revealed by physical fractionation of chromatin. Proc. Natl. Acad. Sci. 100: 6364-6369.
-
(2003)
Proc. Natl. Acad. Sci
, vol.100
, pp. 6364-6369
-
-
Nagy, P.L.1
Cleary, M.L.2
Brown, P.O.3
Lieb, J.D.4
-
45
-
-
10744227070
-
Control of pancreas and liver gene expression by HNF transcription factors
-
Odom, D.T., Zizlsperger, N., Gordon, D.B., Bell, G.W., Rinaldi, N.J., Munay, H.L., Volkert, T.L., Schreiber, J., Rolfe, P.A., Gifford, D.K., et al. 2004. Control of pancreas and liver gene expression by HNF transcription factors. Science 303: 1378-1381.
-
(2004)
Science
, vol.303
, pp. 1378-1381
-
-
Odom, D.T.1
Zizlsperger, N.2
Gordon, D.B.3
Bell, G.W.4
Rinaldi, N.J.5
Munay, H.L.6
Volkert, T.L.7
Schreiber, J.8
Rolfe, P.A.9
Gifford, D.K.10
-
46
-
-
33846862405
-
High-throughput mapping of the chromatin structure of human promoters
-
Ozsolak, F., Song, J.S., Liu, X.S., and Fisher, D.E. 2007. High-throughput mapping of the chromatin structure of human promoters. Nat. Biotechnol. 25: 244-248.
-
(2007)
Nat. Biotechnol
, vol.25
, pp. 244-248
-
-
Ozsolak, F.1
Song, J.S.2
Liu, X.S.3
Fisher, D.E.4
-
47
-
-
33751316959
-
In vivo enhancer analysis of human conserved non-coding sequences
-
Pennacchio, L.A., Ahituv, N., Moses, A.M., Prabhakar, S., Nobrega, M.A., Shoukry, M., Minovitsky, S., Dubchak, I., Holt, A., Lewis, K.D., et al. 2006. In vivo enhancer analysis of human conserved non-coding sequences. Nature 444: 499-502.
-
(2006)
Nature
, vol.444
, pp. 499-502
-
-
Pennacchio, L.A.1
Ahituv, N.2
Moses, A.M.3
Prabhakar, S.4
Nobrega, M.A.5
Shoukry, M.6
Minovitsky, S.7
Dubchak, I.8
Holt, A.9
Lewis, K.D.10
-
48
-
-
33846876333
-
-
Pennacchio, L.A., Loots, G.G., Nobrega, M.A., and Ovcharenko, 1. 2007. Predicting tissue-specific enhancers in the human genome. Genome Res. 17: 201-211.
-
Pennacchio, L.A., Loots, G.G., Nobrega, M.A., and Ovcharenko, 1. 2007. Predicting tissue-specific enhancers in the human genome. Genome Res. 17: 201-211.
-
-
-
-
49
-
-
55549103719
-
E2F in vivo binding specificity: Comparison of consensus versus nonconsensus binding sites
-
Rabinovich, A., Jin, V.X., Rabinovich, R., Xu, X., and Farnham, P.J. 2008. E2F in vivo binding specificity: Comparison of consensus versus nonconsensus binding sites. Genome Res. 18: 1763-1777.
-
(2008)
Genome Res
, vol.18
, pp. 1763-1777
-
-
Rabinovich, A.1
Jin, V.X.2
Rabinovich, R.3
Xu, X.4
Farnham, P.J.5
-
50
-
-
33744792310
-
Sensors and signals: A coactivator/corepressor/epigenetic code for integrating signal-dependent programs of transcriptional response
-
Rosenfeld, M.G., Lunyak, V.V., and Glass, C.K. 2006. Sensors and signals: A coactivator/corepressor/epigenetic code for integrating signal-dependent programs of transcriptional response. Genes & Dev. 20: 1405-1428.
-
(2006)
Genes & Dev
, vol.20
, pp. 1405-1428
-
-
Rosenfeld, M.G.1
Lunyak, V.V.2
Glass, C.K.3
-
51
-
-
39749145198
-
Dynamic regulation of nucleosome positioning in the human genome
-
Schones, D.E., Cui, K., Cuddapah, S., Roll, T.Y., Barski, A., Wang, Z., Wei, G., and Zhao, R. 2008. Dynamic regulation of nucleosome positioning in the human genome. Cell 132: 887-898.
-
(2008)
Cell
, vol.132
, pp. 887-898
-
-
Schones, D.E.1
Cui, K.2
Cuddapah, S.3
Roll, T.Y.4
Barski, A.5
Wang, Z.6
Wei, G.7
Zhao, R.8
-
52
-
-
0033637703
-
Cofactor dynamics and sufficiency in estrogen receptor-regulated transcription
-
Shang, Y., Hu, X., DiRenzo, J., Lazar, M.A., and Brown, M. 2000. Cofactor dynamics and sufficiency in estrogen receptor-regulated transcription. Cell 103: 843-852.
-
(2000)
Cell
, vol.103
, pp. 843-852
-
-
Shang, Y.1
Hu, X.2
DiRenzo, J.3
Lazar, M.A.4
Brown, M.5
-
53
-
-
33847357312
-
A genome-wide analysis in Saccharomyces cerevisiae demonstrates the influence of chromatin modifiers on transcription
-
Steinfeld, I., Shamir, R., and Kupiec, M. 2007. A genome-wide analysis in Saccharomyces cerevisiae demonstrates the influence of chromatin modifiers on transcription. Nat. Genet. 39: 303-309.
-
(2007)
Nat. Genet
, vol.39
, pp. 303-309
-
-
Steinfeld, I.1
Shamir, R.2
Kupiec, M.3
-
54
-
-
33846226977
-
Histone arginine methylation regulates pluripotency in the early mouse embryo
-
Torres-Padilla, M.E., Parfitt, D.E., Kouzarides, T., and Zernicka-Goetz, M. 2007. Histone arginine methylation regulates pluripotency in the early mouse embryo. Nature 445: 214-218.
-
(2007)
Nature
, vol.445
, pp. 214-218
-
-
Torres-Padilla, M.E.1
Parfitt, D.E.2
Kouzarides, T.3
Zernicka-Goetz, M.4
-
55
-
-
0037137519
-
A gene-expression signature as a predictor of survival in breast cancer
-
van de Vijver, M.J., He, Y.D., van't Veer, L.J., Dai, H., Hart, A.A., Voskuil, D.W., Schreiber, G.J., Peterse, J.L., Roberts, C., Marton, M.J., et al. 2002. A gene-expression signature as a predictor of survival in breast cancer. N. Engl. J. Med. 347: 1999-2009.
-
(2002)
N. Engl. J. Med
, vol.347
, pp. 1999-2009
-
-
van de Vijver, M.J.1
He, Y.D.2
van't Veer, L.J.3
Dai, H.4
Hart, A.A.5
Voskuil, D.W.6
Schreiber, G.J.7
Peterse, J.L.8
Roberts, C.9
Marton, M.J.10
-
56
-
-
13844310310
-
Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer
-
Wang, Y., Klijn, J.G., Zhang, Y., Sieuwerts, A.M., Look, M.P., Yang, F., Talantov, D., Timmermans, M., Meijer-van Gelder, M.E., Yu, J., et al. 2005. Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer. Lancet 365: 671-679.
-
(2005)
Lancet
, vol.365
, pp. 671-679
-
-
Wang, Y.1
Klijn, J.G.2
Zhang, Y.3
Sieuwerts, A.M.4
Look, M.P.5
Yang, F.6
Talantov, D.7
Timmermans, M.8
Meijer-van Gelder, M.E.9
Yu, J.10
-
57
-
-
34547214787
-
-
Wang, Q., Li, W., Liu, X.s'., Carroll, J.S., Janne, O.A., Keeton, E.R., Chinnaiyan, A.M., Pienta, K.J., and Brown, M. 2007. A hierarchical network of transcription factors governs androgen receptor-dependent prostate cancer growth, Mol. Cell 27: 380-392.
-
Wang, Q., Li, W., Liu, X.s'., Carroll, J.S., Janne, O.A., Keeton, E.R., Chinnaiyan, A.M., Pienta, K.J., and Brown, M. 2007. A hierarchical network of transcription factors governs androgen receptor-dependent prostate cancer growth, Mol. Cell 27: 380-392.
-
-
-
-
58
-
-
34548441932
-
Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome
-
el, doi: 10.1371/journal.pgen.0030136
-
Xi, H., Shulha, H.P., Lin, J.M., Vales, T.R., Fu, Y., Bodine, D.M., McKay, R.D., Chenoweth, J.G., Tesar, P.J., Furey, T.S., et al. 2007. Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. PLoS Genet. 3: el 36. doi: 10.1371/journal.pgen.0030136.
-
(2007)
PLoS Genet
, vol.3
, pp. 36
-
-
Xi, H.1
Shulha, H.P.2
Lin, J.M.3
Vales, T.R.4
Fu, Y.5
Bodine, D.M.6
McKay, R.D.7
Chenoweth, J.G.8
Tesar, P.J.9
Furey, T.S.10
-
59
-
-
34547635650
-
Pioneer factor interactions and unmethylated CpG dinucleotides mark silent tissue- specific enhancers in embryonic stem cells
-
Xu, J., Pope, S.D., Jazirehi, A.R., Attema, J.L., Papathanasiou, P., Watts, J.A., Zaret, K.S., Weissman, I.L., and Smale, S.T. 2007. Pioneer factor interactions and unmethylated CpG dinucleotides mark silent tissue- specific enhancers in embryonic stem cells. Proc. Natl. Acad. Sci. 104: 12377-12382.
-
(2007)
Proc. Natl. Acad. Sci
, vol.104
, pp. 12377-12382
-
-
Xu, J.1
Pope, S.D.2
Jazirehi, A.R.3
Attema, J.L.4
Papathanasiou, P.5
Watts, J.A.6
Zaret, K.S.7
Weissman, I.L.8
Smale, S.T.9
-
60
-
-
35949000033
-
A comprehensive ChlP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members
-
Xu, X., Bieda, M., Jin, V.X., Rabinovich, A., Oberley, M.J., Green, R., and Farnham, P.J. 2007. A comprehensive ChlP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members. Genome Res. 17: 1550-1561.
-
(2007)
Genome Res
, vol.17
, pp. 1550-1561
-
-
Xu, X.1
Bieda, M.2
Jin, V.X.3
Rabinovich, A.4
Oberley, M.J.5
Green, R.6
Farnham, P.J.7
-
61
-
-
33847057887
-
Relationships between p63 binding, DNA sequence, transcription activity, and biological function in human cells
-
Yang, A., Zhu, Z., Kapranov, P., McKeon, E, Church, G.M., Gingeras, T.R., and Struhl, K. 2006. Relationships between p63 binding, DNA sequence, transcription activity, and biological function in human cells. Mol. Cell 24: 593-602.
-
(2006)
Mol. Cell
, vol.24
, pp. 593-602
-
-
Yang, A.1
Zhu, Z.2
Kapranov, P.3
McKeon, E.4
Church, G.M.5
Gingeras, T.R.6
Struhl, K.7
-
62
-
-
0033135570
-
Developmental competence of the gut endoderm: Genetic potentiation by GATA and HNF3/forkhead proteins
-
Zaret, K. 1999. Developmental competence of the gut endoderm: Genetic potentiation by GATA and HNF3/forkhead proteins. Dev. Biol. 209:1-10.
-
(1999)
Dev. Biol
, vol.209
, pp. 1-10
-
-
Zaret, K.1
-
63
-
-
33847220736
-
Genome-wide analysis of Foxp3 target genes in developing and mature regulatory T cells
-
Zheng, Y., Josefowicz, S.Z., Kas, A., Chu, T.T., Gavin, M.A., and Rudensky, A.Y. 2007. Genome-wide analysis of Foxp3 target genes in developing and mature regulatory T cells. Nature 445: 936-940.
-
(2007)
Nature
, vol.445
, pp. 936-940
-
-
Zheng, Y.1
Josefowicz, S.Z.2
Kas, A.3
Chu, T.T.4
Gavin, M.A.5
Rudensky, A.Y.6
|