-
1
-
-
24644519490
-
The transcriptional landscape of the mammalian genome
-
The FANTOM Consortium
-
The FANTOM Consortium. The transcriptional landscape of the mammalian genome. Science 309, 1559-1563 (2005).
-
(2005)
Science
, vol.309
, pp. 1559-1563
-
-
-
2
-
-
62249133709
-
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
-
Guttman, M. et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 458, 223-227 (2009).
-
(2009)
Nature
, vol.458
, pp. 223-227
-
-
Guttman, M.1
-
3
-
-
77952148742
-
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
-
Guttman, M. et al. Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nature Biotechnol. 28, 503-510 (2010).
-
(2010)
Nature Biotechnol.
, vol.28
, pp. 503-510
-
-
Guttman, M.1
-
4
-
-
67650921949
-
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
-
Khalil, A. M. et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc. Natl Acad. Sci. USA 106, 11667-11672 (2009).
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 11667-11672
-
-
Khalil, A.M.1
-
5
-
-
34248162440
-
Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs
-
DOI 10.1101/gr.6036807
-
Ponjavic, J., Ponting, C. P. & Lunter, G. Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs. Genome Res. 17, 556-565 (2007). (Pubitemid 46715505)
-
(2007)
Genome Research
, vol.17
, Issue.5
, pp. 556-565
-
-
Ponjavic, J.1
Ponting, C.P.2
Lunter, G.3
-
6
-
-
65649092633
-
The genetic signatures of noncoding RNAs
-
Mattick, J. S. The genetic signatures of noncoding RNAs. PLoS Genet. 5, e1000459 (2009).
-
(2009)
PLoS Genet.
, vol.5
-
-
Mattick, J.S.1
-
7
-
-
77952212771
-
RNA traffic control of chromatin complexes
-
Koziol, M. J. & Rinn, J. L. RNA traffic control of chromatin complexes. Curr. Opin. Genet. Dev. 20, 142-148 (2010).
-
(2010)
Curr. Opin. Genet. Dev.
, vol.20
, pp. 142-148
-
-
Koziol, M.J.1
Rinn, J.L.2
-
8
-
-
77952908743
-
A large fraction of extragenicRNA pol II transcription sites overlap enhancers
-
DeSanta, F. et al. A large fraction of extragenicRNA pol II transcription sites overlap enhancers. PLoS Biol. 8, e1000384 (2010).
-
(2010)
PLoS Biol.
, vol.8
-
-
Desanta, F.1
-
9
-
-
77952367798
-
Widespread transcription at neuronal activity-regulated enhancers
-
Kim, T. K. et al. Widespread transcription at neuronal activity-regulated enhancers. Nature 465, 182-187 (2010).
-
(2010)
Nature
, vol.465
, pp. 182-187
-
-
Kim, T.K.1
-
10
-
-
51049102332
-
Ripples from neighbouring transcription
-
Ebisuya, M., Yamamoto, T., Nakajima, M. & Nishida, E. Ripples from neighbouring transcription. Nature Cell Biol. 10, 1106-1113 (2008).
-
(2008)
Nature Cell Biol.
, vol.10
, pp. 1106-1113
-
-
Ebisuya, M.1
Yamamoto, T.2
Nakajima, M.3
Nishida, E.4
-
11
-
-
77957243921
-
Long noncodingRNAs with enhancer-like function inhumancells
-
Ørom, U.A. et al. Long noncodingRNAs with enhancer-like function inhumancells. Cell 143, 46-58 (2010).
-
(2010)
Cell
, vol.143
, pp. 46-58
-
-
Ørom, U.A.1
-
12
-
-
77955323879
-
Alarge intergenic noncodingRNAinduced byp53mediates global gene repression in the p53 response
-
Huarte, M. et al. Alarge intergenic noncodingRNAinduced byp53mediates global gene repression in the p53 response. Cell 142, 409-419 (2010).
-
(2010)
Cell
, vol.142
, pp. 409-419
-
-
Huarte, M.1
-
13
-
-
34250729138
-
Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
-
DOI 10.1016/j.cell.2007.05.022, PII S0092867407006599
-
Rinn, J. L. et al. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129, 1311-1323 (2007). (Pubitemid 46962090)
-
(2007)
Cell
, vol.129
, Issue.7
, pp. 1311-1323
-
-
Rinn, J.L.1
Kertesz, M.2
Wang, J.K.3
Squazzo, S.L.4
Xu, X.5
Brugmann, S.A.6
Goodnough, L.H.7
Helms, J.A.8
Farnham, P.J.9
Segal, E.10
Chang, H.Y.11
-
14
-
-
0035189927
-
Embryo-derived stemcells: Of mice and men
-
Smith, A. G. Embryo-derived stemcells: of mice and men. Annu. Rev. Cell Dev. Biol. 17, 435-462 (2001).
-
(2001)
Annu. Rev. Cell Dev. Biol.
, vol.17
, pp. 435-462
-
-
Smith, A.G.1
-
15
-
-
39149130361
-
Stem cells, the molecular circuitry of pluripotency and nuclear reprogramming
-
DOI 10.1016/j.cell.2008.01.015, PII S0092867408001153
-
Jaenisch, R. & Young, R. Stem cells, the molecular circuitry of pluripotency and nuclear reprogramming. Cell 132, 567-582 (2008). (Pubitemid 351253686)
-
(2008)
Cell
, vol.132
, Issue.4
, pp. 567-582
-
-
Jaenisch, R.1
Young, R.2
-
16
-
-
44649117905
-
Integration of external signaling pathways with the core transcriptional network in embryonic stem cells
-
DOI 10.1016/j.cell.2008.04.043, PII S009286740800617X
-
Chen, X. et al. Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 133, 1106-1117 (2008). (Pubitemid 351787745)
-
(2008)
Cell
, vol.133
, Issue.6
, 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
Loh, Y.-H.11
Yeo, H.C.12
Yeo, Z.X.13
Narang, V.14
Govindarajan, K.R.15
Leong, B.16
Shahab, A.17
Ruan, Y.18
Bourque, G.19
Sung, W.-K.20
Clarke, N.D.21
Wei, C.-L.22
Ng, H.-H.23
more..
-
17
-
-
33746773659
-
Dissecting self-renewal in stem cells with RNA interference
-
DOI 10.1038/nature04915, PII NATURE04915
-
Ivanova, N. et al. Dissecting self-renewal in stemcells withRNA interference. Nature 442, 533-538 (2006). (Pubitemid 44167907)
-
(2006)
Nature
, vol.442
, Issue.7102
, pp. 533-538
-
-
Ivanova, N.1
Dobrin, R.2
Lu, R.3
Kotenko, I.4
Levorse, J.5
DeCoste, C.6
Schafer, X.7
Lun, Y.8
Lemischka, I.R.9
-
18
-
-
33646882068
-
Polycomb complexes repress developmental regulators in murine embryonic stem cells
-
DOI 10.1038/nature04733, PII NATURE04733
-
Boyer, L. A. et al. Polycombcomplexes repress developmental regulators inmurine embryonic stem cells. Nature 441, 349-353 (2006). (Pubitemid 44050199)
-
(2006)
Nature
, vol.441
, Issue.7091
, pp. 349-353
-
-
Boyer, L.A.1
Plath, K.2
Zeitlinger, J.3
Brambrink, T.4
Medeiros, L.A.5
Lee, T.I.6
Levine, S.S.7
Wernig, M.8
Tajonar, A.9
Ray, M.K.10
Bell, G.W.11
Otte, A.P.12
Vidal, M.13
Gifford, D.K.14
Young, R.A.15
Jaenisch, R.16
-
19
-
-
33646070846
-
A bivalent chromatin structure marks key developmental genes in embryonic stem cells
-
Bernstein, B. E. et al. A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell 125, 315-326 (2006).
-
(2006)
Cell
, vol.125
, pp. 315-326
-
-
Bernstein, B.E.1
-
20
-
-
46149110511
-
An RNAi Screen of Chromatin Proteins Identifies Tip60-p400 as a Regulator of Embryonic Stem Cell Identity
-
DOI 10.1016/j.cell.2008.05.031, PII S0092867408006922
-
Fazzio, T. G., Huff, J. T. & Panning, B. An RNAi screen of chromatin proteins identifies Tip60-p400 as a regulator of embryonic stem cell identity. Cell 134, 162-174 (2008). (Pubitemid 351905738)
-
(2008)
Cell
, vol.134
, Issue.1
, pp. 162-174
-
-
Fazzio, T.G.1
Huff, J.T.2
Panning, B.3
-
21
-
-
70350686180
-
SetDB1 contributes to repression of genes encoding developmental regulators and maintenance of ES cell state
-
Bilodeau, S., Kagey, M. H., Frampton, G. M., Rahl, P. B. & Young, R. A. SetDB1 contributes to repression of genes encoding developmental regulators and maintenance of ES cell state. Genes Dev. 23, 2484-2489 (2009).
-
(2009)
Genes Dev.
, vol.23
, pp. 2484-2489
-
-
Bilodeau, S.1
Kagey, M.H.2
Frampton, G.M.3
Rahl, P.B.4
Young, R.A.5
-
22
-
-
33646033137
-
A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen
-
Moffat, J. et al. A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell 124, 1283-1298 (2006).
-
(2006)
Cell
, vol.124
, pp. 1283-1298
-
-
Moffat, J.1
-
23
-
-
64349096829
-
A genome-wide RNAi screen identifies a new transcriptional module required for self-renewal
-
Hu, G. et al. A genome-wide RNAi screen identifies a new transcriptional module required for self-renewal. Genes Dev. 23, 837-848 (2009).
-
(2009)
Genes Dev.
, vol.23
, pp. 837-848
-
-
Hu, G.1
-
24
-
-
0036948659
-
Xist RNA and the mechanism of X chromosome inactivation
-
DOI 10.1146/annurev.genet.36.042902.092433
-
Plath, K., Mlynarczyk-Evans, S., Nusinow, D. A. & Panning, B. Xist RNA and the mechanismof X chromosome inactivation. Annu. Rev. Genet. 36, 233-278 (2002). (Pubitemid 36109190)
-
(2002)
Annual Review of Genetics
, vol.36
, pp. 233-278
-
-
Plath, K.1
Mlynarczyk-Evans, S.2
Nusinow, D.A.3
Panning, B.4
-
25
-
-
69549128557
-
The function of non-coding RNAs in genomic imprinting
-
Koerner, M. V., Pauler, F. M., Huang, R. & Barlow, D. P. The function of non-coding RNAs in genomic imprinting. Development 136, 1771-1783 (2009).
-
(2009)
Development
, vol.136
, pp. 1771-1783
-
-
Koerner, M.V.1
Pauler, F.M.2
Huang, R.3
Barlow, D.P.4
-
26
-
-
70149123708
-
Genomic and transcriptional colocalization of protein-coding and long non-coding RNA pairs in the developing brain
-
Ponjavic, J., Oliver, P. L., Lunter, G.& Ponting, C. P. Genomic and transcriptional colocalization of protein-coding and long non-coding RNA pairs in the developing brain. PLoS Genet. 5, e1000617 (2009).
-
(2009)
PLoS Genet.
, vol.5
-
-
Ponjavic, J.1
Oliver, P.L.2
Lunter, G.3
Ponting, C.P.4
-
27
-
-
25844496592
-
The role of chromatin structure in regulating the expression of clustered genes
-
DOI 10.1038/nrg1688
-
Sproul, D., Gilbert, N. & Bickmore, W. A. The role of chromatin structure in regulating the expression of clustered genes. Nature Rev. Genet. 6, 775-781 (2005). (Pubitemid 41400835)
-
(2005)
Nature Reviews Genetics
, vol.6
, Issue.10
, pp. 775-781
-
-
Sproul, D.1
Gilbert, N.2
Bickmore, W.A.3
-
28
-
-
68749110887
-
Nanog is the gateway to the pluripotent ground state
-
Silva, J. et al. Nanog is the gateway to the pluripotent ground state. Cell 138, 722-737 (2009).
-
(2009)
Cell
, vol.138
, pp. 722-737
-
-
Silva, J.1
-
29
-
-
0038143611
-
Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells
-
DOI 10.1016/S0092-8674(03)00392-1
-
Chambers, I. et al. Functional expression cloning of Nanog, a pluripotency sustaining factor in embryonic stem cells. Cell 113, 643-655 (2003). (Pubitemid 36694189)
-
(2003)
Cell
, vol.113
, Issue.5
, pp. 643-655
-
-
Chambers, I.1
Colby, D.2
Robertson, M.3
Nichols, J.4
Lee, S.5
Tweedie, S.6
Smith, A.7
-
30
-
-
0037806031
-
The homeoprotein nanog is required for maintenance of pluripotency in mouse epiblast and ES cells
-
DOI 10.1016/S0092-8674(03)00393-3
-
Mitsui, K. et al. The homeoprotein Nanog is required for maintenance of pluripotency in mouse epiblast and ES cells. Cell 113, 631-642 (2003). (Pubitemid 36694188)
-
(2003)
Cell
, vol.113
, Issue.5
, pp. 631-642
-
-
Mitsui, K.1
Tokuzawa, Y.2
Itoh, H.3
Segawa, K.4
Murakami, M.5
Takahashi, K.6
Maruyama, M.7
Maeda, M.8
Yamanaka, S.9
-
31
-
-
38649094609
-
Sequential expression of pluripotency markers during direct reprogramming of mouse somatic cells
-
DOI 10.1016/j.stem.2008.01.004, PII S1934590908000052
-
Brambrink, T. et al. Sequential expression of pluripotency markers during direct reprogramming of mouse somatic cells. Cell Stem Cell 2, 151-159 (2008). (Pubitemid 351168714)
-
(2008)
Cell Stem Cell
, vol.2
, Issue.2
, pp. 151-159
-
-
Brambrink, T.1
Foreman, R.2
Welstead, G.G.3
Lengner, C.J.4
Wernig, M.5
Suh, H.6
Jaenisch, R.7
-
32
-
-
34047138852
-
Prospective isolation and global gene expression analysis of definitive and visceral endoderm
-
DOI 10.1016/j.ydbio.2007.01.011, PII S0012160607000280
-
Sherwood, R. I. et al. Prospective isolation and global gene expression analysis of definitive and visceral endoderm. Dev. Biol. 304, 541-555 (2007). (Pubitemid 46527567)
-
(2007)
Developmental Biology
, vol.304
, Issue.2
, pp. 541-555
-
-
Sherwood, R.I.1
Jitianu, C.2
Cleaver, O.3
Shaywitz, D.A.4
Lamenzo, J.O.5
Chen, A.E.6
Golub, T.R.7
Melton, D.A.8
-
33
-
-
65249110433
-
Defining developmental potency and cell lineage trajectories by expression profiling of differentiating mouse embryonic stem cells
-
Aiba, K. et al. Defining developmental potency and cell lineage trajectories by expression profiling of differentiating mouse embryonic stem cells. DNA Res. 16, 73-80 (2009).
-
(2009)
DNA Res.
, vol.16
, pp. 73-80
-
-
Aiba, K.1
-
34
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
DOI 10.1073/pnas.0506580102
-
Subramanian, A. et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl Acad. Sci. USA 102, 15545-15550 (2005). (Pubitemid 41528093)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.43
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
Mukherjee, S.4
Ebert, B.L.5
Gillette, M.A.6
Paulovich, A.7
Pomeroy, S.L.8
Golub, T.R.9
Lander, E.S.10
Mesirov, J.P.11
-
35
-
-
0034028901
-
Quantitative expression of Oct-3/4 defines differentiation, dedifferentiation or self-renewal of ES cells
-
DOI 10.1038/74199
-
Niwa, H., Miyazaki, J. & Smith, A. G. Quantitative expression of Oct-3/4 defines differentiation, dedifferentiation or self-renewal of ES cells. Nature Genet. 24, 372-376 (2000). (Pubitemid 30187435)
-
(2000)
Nature Genetics
, vol.24
, Issue.4
, pp. 372-376
-
-
Niwa, H.1
Miyazaki, J.-I.2
Smith, A.G.3
-
36
-
-
34248169728
-
The polycomb group protein Suz12 is required for embryonic stem cell differentiation
-
DOI 10.1128/MCB.01432-06
-
Pasini, D., Bracken, A. P., Hansen, J. B., Capillo, M. & Helin, K. The polycomb group proteinSuz12is required forembryonic stemcell differentiation.Mol. Cell. Biol. 27, 3769-3779 (2007). (Pubitemid 46726184)
-
(2007)
Molecular and Cellular Biology
, vol.27
, Issue.10
, pp. 3769-3779
-
-
Pasini, D.1
Bracken, A.P.2
Hansen, J.B.3
Capillo, M.4
Helin, K.5
-
37
-
-
79951711112
-
Role for Dpy-30 in ES cell-fate specification by regulation of H3K4 methylation within bivalent domains
-
Jiang, H. et al. Role for Dpy-30 in ES cell-fate specification by regulation of H3K4 methylation within bivalent domains. Cell 144, 513-525 (2011).
-
(2011)
Cell
, vol.144
, pp. 513-525
-
-
Jiang, H.1
-
38
-
-
48449084118
-
Connecting microRNAgenes to the core transcriptional regulatory circuitry of embryonic stem cells
-
Marson, A. et al.Connecting microRNAgenes to the core transcriptional regulatory circuitry of embryonic stem cells. Cell 134, 521-533 (2008).
-
(2008)
Cell
, vol.134
, pp. 521-533
-
-
Marson, A.1
-
39
-
-
77954100084
-
Transposable elements have rewired the core regulatory network of human embryonic stem cells
-
Kunarso, G. et al. Transposable elements have rewired the core regulatory network of human embryonic stem cells. Nature Genet. 42, 631-634 (2010).
-
(2010)
Nature Genet.
, vol.42
, pp. 631-634
-
-
Kunarso, G.1
-
40
-
-
40249093059
-
A core Klf circuitry regulates self-renewal of embryonic stem cells
-
DOI 10.1038/ncb1698, PII NCB1698
-
Jiang, J. et al. A core Klf circuitry regulates self-renewal of embryonic stem cells. Nature Cell Biol. 10, 353-360 (2008). (Pubitemid 351331023)
-
(2008)
Nature Cell Biology
, vol.10
, Issue.3
, pp. 353-360
-
-
Jiang, J.1
Chan, Y.-S.2
Loh, Y.-H.3
Cai, J.4
Tong, G.-Q.5
Lim, C.-A.6
Robson, P.7
Zhong, S.8
Ng, H.-H.9
-
41
-
-
40449100030
-
Direct multiplexed measurement of gene expression with color-coded probe pairs
-
DOI 10.1038/nbt1385, PII NBT1385
-
Geiss, G. K. et al. Direct multiplexed measurement of gene expression with colorcoded probe pairs. Nature Biotechnol. 26, 317-325 (2008). (Pubitemid 351355126)
-
(2008)
Nature Biotechnology
, vol.26
, Issue.3
, pp. 317-325
-
-
Geiss, G.K.1
Bumgarner, R.E.2
Birditt, B.3
Dahl, T.4
Dowidar, N.5
Dunaway, D.L.6
Fell, H.P.7
Ferree, S.8
George, R.D.9
Grogan, T.10
James, J.J.11
Maysuria, M.12
Mitton, J.D.13
Oliveri, P.14
Osborn, J.L.15
Peng, T.16
Ratcliffe, A.L.17
Webster, P.J.18
Davidson, E.H.19
Hood, L.20
more..
-
42
-
-
49349092791
-
The histone demethylase KDM5b/JARID1b plays a role in cell fate decisions by blocking terminal differentiation
-
Dey, B. K. et al. The histone demethylase KDM5b/JARID1b plays a role in cell fate decisions by blocking terminal differentiation. Mol. Cell. Biol. 28, 5312-5327 (2008).
-
(2008)
Mol. Cell. Biol.
, vol.28
, pp. 5312-5327
-
-
Dey, B.K.1
-
43
-
-
43249102851
-
Erasing the methyl mark: Histone demethylases at the center of cellular differentiation and disease
-
DOI 10.1101/gad.1652908
-
Cloos, P. A., Christensen, J., Agger, K. & Helin, K. Erasing the methyl mark: histone demethylases at the center of cellular differentiation and disease. Genes Dev. 22, 1115-1140 (2008). (Pubitemid 351656572)
-
(2008)
Genes and Development
, vol.22
, Issue.9
, pp. 1115-1140
-
-
Cloos, P.A.C.1
Christensen, J.2
Agger, K.3
Helin, K.4
-
45
-
-
0036479009
-
Chromosomal silencing and localization aremediated by different domains of XistRNA
-
Wutz, A., Rasmussen, T. P. & Jaenisch, R. Chromosomal silencing and localization aremediated by different domains of XistRNA.NatureGenet. 30,167-174(2002).
-
(2002)
NatureGenet.
, vol.30
, pp. 167-174
-
-
Wutz, A.1
Rasmussen, T.P.2
Jaenisch, R.3
-
46
-
-
77954572735
-
Long noncoding RNA as modular scaffold of histone modification complexes
-
Tsai, M. C. et al. Long noncoding RNA as modular scaffold of histone modification complexes. Science 329, 689-693 (2010).
-
(2010)
Science
, vol.329
, pp. 689-693
-
-
Tsai, M.C.1
-
47
-
-
59749089913
-
Derivation and manipulation of murine embryonic stem cells
-
Meissner, A., Eminli, S. & Jaenisch, R. Derivation and manipulation of murine embryonic stem cells. Methods Mol. Biol. 482, 3-19 (2009).
-
(2009)
Methods Mol. Biol.
, vol.482
, pp. 3-19
-
-
Meissner, A.1
Eminli, S.2
Jaenisch, R.3
-
48
-
-
0032582513
-
Formation of pluripotent stem cells in the mammalian embryo depends on the POU transcription factor Oct4
-
DOI 10.1016/S0092-8674(00)81769-9
-
Nichols, J. et al. Formation of pluripotent stem cells in the mammalian embryo depends on the POU transcription factor Oct4. Cell 95, 379-391 (1998). (Pubitemid 28507326)
-
(1998)
Cell
, vol.95
, Issue.3
, pp. 379-391
-
-
Nichols, J.1
Zevnik, B.2
Anastassiadis, K.3
Niwa, H.4
Klewe-Nebenius, D.5
Chambers, I.6
Scholer, H.7
Smith, A.8
-
49
-
-
0037227099
-
Multipotent cell lineages in early mouse development depend on SOX2 function
-
DOI 10.1101/gad.224503
-
Avilion, A. A. et al. Multipotent cell lineages in earlymouse development depend on SOX2 function. Genes Dev. 17, 126-140 (2003). (Pubitemid 36062514)
-
(2003)
Genes and Development
, vol.17
, Issue.1
, pp. 126-140
-
-
Avilion, A.A.1
Nicolis, S.K.2
Pevny, L.H.3
Perez, L.4
Vivian, N.5
Lovell-Badge, R.6
-
50
-
-
0032127977
-
Self-renewal of pluripotent embryonic stem cells is mediated via activation of STAT3
-
Niwa, H., Burdon, T., Chambers, I. & Smith, A. Self-renewal of pluripotent embryonic stem cells is mediated via activation of STAT3. Genes Dev. 12, 2048-2060 (1998). (Pubitemid 28323878)
-
(1998)
Genes and Development
, vol.12
, Issue.13
, pp. 2048-2060
-
-
Niwa, H.1
Burdon, T.2
Chambers, I.3
Smith, A.4
-
51
-
-
33749624178
-
Klf4 cooperates with Oct3/4 and Sox2 to activate the Lefty1 core promoter in embryonic stem cells
-
DOI 10.1128/MCB.00468-06
-
Nakatake, Y. et al. Klf4 cooperates with Oct3/4 and Sox2 to activate the Lefty1 core promoter in embryonic stem cells. Mol. Cell. Biol. 26, 7772-7782 (2006). (Pubitemid 44547722)
-
(2006)
Molecular and Cellular Biology
, vol.26
, Issue.20
, pp. 7772-7782
-
-
Nakatake, Y.1
Fukui, N.2
Iwamatsu, Y.3
Masui, S.4
Takahashi, K.5
Yagi, R.6
Yagi, K.7
Miyazaki, J.-I.8
Matoba, R.9
Ko, M.S.H.10
Niwa, H.11
-
52
-
-
34447527158
-
Derivation of pluripotent epiblast stem cells from mammalian embryos
-
DOI 10.1038/nature05950, PII NATURE05950
-
Brons, I. G. et al. Derivation of pluripotent epiblast stem cells from mammalian embryos. Nature 448, 191-195 (2007). (Pubitemid 47067373)
-
(2007)
Nature
, vol.448
, Issue.7150
, pp. 191-195
-
-
Brons, I.G.M.1
Smithers, L.E.2
Trotter, M.W.B.3
Rugg-Gunn, P.4
Sun, B.5
Chuva De Sousa Lopes, S.M.6
Howlett, S.K.7
Clarkson, A.8
Ahrlund-Richter, L.9
Pedersen, R.A.10
Vallier, L.11
-
53
-
-
33846226977
-
Histone arginine methylation regulates pluripotency in the early mouse embryo
-
DOI 10.1038/nature05458, PII NATURE05458
-
Torres-Padilla, M. E., Parfitt, D. E., Kouzarides, T. & Zernicka-Goetz, M. Histone arginine methylation regulates pluripotency in the early mouse embryo. Nature 445, 214-218 (2007). (Pubitemid 46095726)
-
(2007)
Nature
, vol.445
, Issue.7124
, pp. 214-218
-
-
Torres-Padilla, M.-E.1
Parfitt, D.-E.2
Kouzarides, T.3
Zernicka-Goetz, M.4
-
54
-
-
68949164755
-
Chd1 regulates open chromatin and pluripotency of embryonic stem cells
-
Gaspar-Maia, A. et al. Chd1 regulates open chromatin and pluripotency of embryonic stem cells. Nature 460, 863-868 (2009).
-
(2009)
Nature
, vol.460
, pp. 863-868
-
-
Gaspar-Maia, A.1
-
55
-
-
45449093213
-
Ronin is essential for embryogenesis and the pluripotency of mouse embryonic stem cells
-
DOI 10.1016/j.cell.2008.05.047, PII S0092867408007502
-
Dejosez, M. et al. Ronin is essential for embryogenesis and the pluripotency of mouse embryonic stem cells. Cell 133, 1162-1174 (2008). (Pubitemid 351852919)
-
(2008)
Cell
, vol.133
, Issue.7
, pp. 1162-1174
-
-
Dejosez, M.1
Krumenacker, J.S.2
Zitur, L.J.3
Passeri, M.4
Chu, L.-F.5
Songyang, Z.6
Thomson, J.A.7
Zwaka, T.P.8
-
56
-
-
70350686165
-
Eset partners with Oct4 to restrict extraembryonic trophoblast lineage potential in embryonic stem cells
-
Yuan, P. et al. Eset partners with Oct4 to restrict extraembryonic trophoblast lineage potential in embryonic stem cells. Genes Dev. 23, 2507-2520 (2009).
-
(2009)
Genes Dev.
, vol.23
, pp. 2507-2520
-
-
Yuan, P.1
-
57
-
-
58149178579
-
NCBI Reference Sequences: Current status policy and new initiatives
-
Pruitt, K. D., Tatusova, T., Klimke, W. & Maglott, D. R. NCBI Reference Sequences: current status, policy and new initiatives. Nucleic Acids Res. 37, D32-D36 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Pruitt, K.D.1
Tatusova, T.2
Klimke, W.3
Maglott, D.R.4
-
58
-
-
1342294092
-
Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation
-
Yang, Y. H. et al. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res. 30, e15 (2002).
-
(2002)
Nucleic Acids Res.
, vol.30
-
-
Yang, Y.H.1
-
59
-
-
55949124844
-
EZH1 mediates methylation on histone H3 lysine 27 and complements EZH2 in maintaining stemcell identity and executing pluripotency
-
Shen, X. et al. EZH1 mediates methylation on histone H3 lysine 27 and complements EZH2 in maintaining stemcell identity and executing pluripotency. Mol. Cell 32, 491-502 (2008).
-
(2008)
Mol. Cell
, vol.32
, pp. 491-502
-
-
Shen, X.1
-
60
-
-
33745511089
-
Defining a developmental path to neural fate by global expression profiling of mouse embryonic stem cells and adult neural stem/progenitor cells
-
DOI 10.1634/stemcells.2005-0332
-
Aiba, K. et al. Defining a developmental path to neural fate by global expression profiling of mouse embryonic stem cells and adult neural stem/progenitor cells. Stem Cells 24, 889-895 (2006). (Pubitemid 44464722)
-
(2006)
Stem Cells
, vol.24
, Issue.4
, pp. 889-895
-
-
Aiba, K.1
Sharov, A.A.2
Carter, M.G.3
Foroni, C.4
Vescovi, A.L.5
Ko, M.S.H.6
-
61
-
-
0037313844
-
Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture
-
DOI 10.1038/nbt780
-
Ying, Q. L., Stavridis, M., Griffiths, D., Li, M. & Smith, A. Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture. Nature Biotechnol. 21, 183-186 (2003). (Pubitemid 36188218)
-
(2003)
Nature Biotechnology
, vol.21
, Issue.2
, pp. 183-186
-
-
Ying, Q.-L.1
Stavridis, M.2
Griffiths, D.3
Li, M.4
Smith, A.5
-
62
-
-
0032533241
-
GATA6 regulates HNF4 and is required for differentiation of visceral endoderm in the mouse embryo
-
Morrisey, E. E. et al. GATA6 regulates HNF4 and is required for differentiation of visceral endoderm in the mouse embryo. Genes Dev. 12, 3579-3590 (1998). (Pubitemid 28553248)
-
(1998)
Genes and Development
, vol.12
, Issue.22
, pp. 3579-3590
-
-
Morrisey, E.E.1
Tang, Z.2
Sigrist, K.3
Lu, M.M.4
Jiang, F.5
Ip, H.S.6
Parmacek, M.S.7
-
63
-
-
79551677421
-
Reference maps of human ES and iPS cell variation enable highthroughput characterization of pluripotent cell lines
-
Bock, C. et al. Reference maps of human ES and iPS cell variation enable highthroughput characterization of pluripotent cell lines. Cell 144, 439-452 (2011).
-
(2011)
Cell
, vol.144
, pp. 439-452
-
-
Bock, C.1
-
64
-
-
70449091786
-
Systematic RNA interference reveals that oncogenic KRASdriven cancers require TBK1
-
Barbie, D. A. et al. Systematic RNA interference reveals that oncogenic KRASdriven cancers require TBK1. Nature 462, 108-112 (2009).
-
(2009)
Nature
, vol.462
, pp. 108-112
-
-
Barbie, D.A.1
-
65
-
-
33749335282
-
The connectivity map: Using gene-expression signatures to connect small molecules, genes, and disease
-
DOI 10.1126/science.1132939
-
Lamb, J. et al. The connectivity map: using gene-expression signatures to connect small molecules, genes, and disease. Science 313, 1929-1935 (2006). (Pubitemid 44497995)
-
(2006)
Science
, vol.313
, Issue.5795
, pp. 1929-1935
-
-
Lamb, J.1
Crawford, E.D.2
Peck, D.3
Modell, J.W.4
Blat, I.C.5
Wrobel, M.J.6
Lerner, J.7
Brunet, J.-P.8
Subramanian, A.9
Ross, K.N.10
Reich, M.11
Hieronymus, H.12
Wei, G.13
Armstrong, S.A.14
Haggarty, S.J.15
Clemons, P.A.16
Wei, R.17
Carr, S.A.18
Lander, E.S.19
Golub, T.R.20
more..
-
66
-
-
77955343193
-
Cloud-scale RNA-sequencing differential expression analysis with Myrna
-
Langmead, B., Hansen, K. D. & Leek, J. T. Cloud-scale RNA-sequencing differential expression analysis with Myrna. Genome Biol. 11, R83 (2010).
-
(2010)
Genome Biol.
, vol.11
-
-
Langmead, B.1
Hansen, K.D.2
Leek, J.T.3
-
67
-
-
53849146020
-
Model-based analysis of ChIP-Seq (MACS)
-
Zhang, Y. et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 9, R137 (2008).
-
(2008)
Genome Biol.
, vol.9
-
-
Zhang, Y.1
-
68
-
-
60149091656
-
ChIP-seq accurately predicts tissue-specific activity of enhancers
-
Visel, A. et al. ChIP-seq accurately predicts tissue-specific activity of enhancers. Nature 457, 854-858 (2009).
-
(2009)
Nature
, vol.457
, pp. 854-858
-
-
Visel, A.1
-
69
-
-
78649714014
-
Analysis and design of RNA sequencing experiments for identifying isoform regulation
-
Katz, Y., Wang, E. T., Airoldi, E. M. & Burge, C. B. Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nature Methods 7, 1009-1015 (2010).
-
(2010)
Nature Methods
, vol.7
, pp. 1009-1015
-
-
Katz, Y.1
Wang, E.T.2
Airoldi, E.M.3
Burge, C.B.4
-
70
-
-
56549105330
-
HITS-CLIP yields genome-wide insights into brain alternative RNA processing
-
DOI 10.1038/nature07488, PII NATURE07488
-
Licatalosi, D. D. et al. HITS-CLIP yields genome-wide insights into brain alternative RNA processing. Nature 456, 464-469 (2008). (Pubitemid 352759008)
-
(2008)
Nature
, vol.456
, Issue.7221
, pp. 464-469
-
-
Licatalosi, D.D.1
Mele, A.2
Fak, J.J.3
Ule, J.4
Kayikci, M.5
Chi, S.W.6
Clark, T.A.7
Schweitzer, A.C.8
Blume, J.E.9
Wang, X.10
Darnell, J.C.11
Darnell, R.B.12
-
71
-
-
0242497663
-
CLIP identifies Nova-regulatedRNA networks in the brain
-
DOI 10.1126/science.1090095
-
Ule, J. et al. CLIP identifies Nova-regulatedRNA networks in the brain. Science 302, 1212-1215 (2003). (Pubitemid 37421026)
-
(2003)
Science
, vol.302
, Issue.5648
, pp. 1212-1215
-
-
Ule, J.1
Jensen, K.B.2
Ruggiu, M.3
Mele, A.4
Ule, A.5
Darnell, R.B.6
-
72
-
-
67649840910
-
CLIP: Construction of cDNA libraries for high-throughput sequencing from RNAs cross-linked to proteins in vivo
-
Wang, Z., Tollervey, J., Briese, M., Turner, D. & Ule, J. CLIP: construction of cDNA libraries for high-throughput sequencing from RNAs cross-linked to proteins in vivo. Methods 48, 287-293 (2009).
-
(2009)
Methods
, vol.48
, pp. 287-293
-
-
Wang, Z.1
Tollervey, J.2
Briese, M.3
Turner, D.4
Ule, J.5
|