-
1
-
-
33847775659
-
Rise, fall and resurrection of chromosome territories: A historical perspective. Part II. Fall and resurrection of chromosome territories during the 1950s to 1980s. Part III. Chromosome territories and the functional nuclear architecture: Experiments and models from the 1990s to the present
-
Cremer, T., and Cremer, C. (2006) Rise, fall and resurrection of chromosome territories: a historical perspective. Part II. Fall and resurrection of chromosome territories during the 1950s to 1980s. Part III. Chromosome territories and the functional nuclear architecture: experiments and models from the 1990s to the present. Eur. J. Histochem. 50, 223-272
-
(2006)
Eur. J. Histochem.
, vol.50
, pp. 223-272
-
-
Cremer, T.1
Cremer, C.2
-
3
-
-
33646729244
-
Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations
-
Branco, M. R., and Pombo, A. (2006) Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations. PLoS Biol. 4, e138
-
(2006)
PLoS Biol.
, vol.4
-
-
Branco, M.R.1
Pombo, A.2
-
4
-
-
84861960359
-
Revisiting higher-order and large-scale chromatin organization
-
Bian, Q., and Belmont, A. S. (2012) Revisiting higher-order and large-scale chromatin organization. Curr. Opin. Cell Biol. 24, 359-366
-
(2012)
Curr. Opin. Cell Biol.
, vol.24
, pp. 359-366
-
-
Bian, Q.1
Belmont, A.S.2
-
6
-
-
84861095603
-
Topological domains in mammalian genomes identified by analysis of chromatin interactions
-
Dixon, J. R., Selvaraj, S., Yue, F., Kim, A., Li, Y., Shen, Y., Hu, M., Liu, J. S., and Ren, B. (2012) Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature 485, 376-380
-
(2012)
Nature
, vol.485
, pp. 376-380
-
-
Dixon, J.R.1
Selvaraj, S.2
Yue, F.3
Kim, A.4
Li, Y.5
Shen, Y.6
Hu, M.7
Liu, J.S.8
Ren, B.9
-
7
-
-
70349873824
-
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
-
Lieberman-Aiden, E., van Berkum, N. L., Williams, L., Imakaev, M., Ragoczy, T., Telling, A., Amit, I., Lajoie, B. R., Sabo, P. J., Dorschner, M. O., Sandstrom, R., Bernstein, B., Bender, M. A., Groudine, M., Gnirke, A., Stamatoyannopoulos, J., Mirny, L. A., Lander, E. S., and Dekker, J. (2009) Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science 326, 289-293
-
(2009)
Science
, vol.326
, pp. 289-293
-
-
Lieberman-Aiden, E.1
Van Berkum, N.L.2
Williams, L.3
Imakaev, M.4
Ragoczy, T.5
Telling, A.6
Amit, I.7
Lajoie, B.R.8
Sabo, P.J.9
Dorschner, M.O.10
Sandstrom, R.11
Bernstein, B.12
Bender, M.A.13
Groudine, M.14
Gnirke, A.15
Stamatoyannopoulos, J.16
Mirny, L.A.17
Lander, E.S.18
Dekker, J.19
-
8
-
-
84861100147
-
Spatial partitioning of the regulatory landscape of the X-inactivation centre
-
Nora, E. P., Lajoie, B. R., Schulz, E. G., Giorgetti, L., Okamoto, I., Servant, N., Piolot, T., van Berkum, N. L., Meisig, J., Sedat, J., Gribnau, J., Barillot, E., Blüthgen, N., Dekker, J., and Heard, E. (2012) Spatial partitioning of the regulatory landscape of the X-inactivation centre. Nature 485, 381-385
-
(2012)
Nature
, vol.485
, pp. 381-385
-
-
Nora, E.P.1
Lajoie, B.R.2
Schulz, E.G.3
Giorgetti, L.4
Okamoto, I.5
Servant, N.6
Piolot, T.7
Van Berkum, N.L.8
Meisig, J.9
Sedat, J.10
Gribnau, J.11
Barillot, E.12
Blüthgen, N.13
Dekker, J.14
Heard, E.15
-
9
-
-
77956416028
-
Gene positioning
-
Ferrai, C., de Castro, I. J., Lavitas, L., Chotalia, M., and Pombo, A. (2010) Gene positioning. Cold Spring Harb. Perspect. Biol. 2, a000588
-
(2010)
Cold Spring Harb. Perspect. Biol.
, vol.2
-
-
Ferrai, C.1
De Castro, I.J.2
Lavitas, L.3
Chotalia, M.4
Pombo, A.5
-
11
-
-
0020062161
-
Induction of chromosome damage by ultraviolet light and caffeine: Correlation of cytogenetic evaluation and flow karyotype
-
Cremer, C., Cremer, T., and Gray, J. W. (1982) Induction of chromosome damage by ultraviolet light and caffeine: correlation of cytogenetic evaluation and flow karyotype. Cytometry 2, 287-290
-
(1982)
Cytometry
, vol.2
, pp. 287-290
-
-
Cremer, C.1
Cremer, T.2
Gray, J.W.3
-
12
-
-
2442695407
-
Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription
-
Chambeyron, S., and Bickmore, W. A. (2004) Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription. Genes Dev. 18, 1119-1130
-
(2004)
Genes Dev.
, vol.18
, pp. 1119-1130
-
-
Chambeyron, S.1
Bickmore, W.A.2
-
13
-
-
75749100247
-
Poised transcription factories prime silent uPA gene prior to activation
-
Ferrai, C., Xie, S. Q., Luraghi, P., Munari, D., Ramirez, F., Branco, M. R., Pombo, A., and Crippa, M. P. (2010) Poised transcription factories prime silent uPA gene prior to activation. PLoS Biol. 8, e1000270
-
(2010)
PLoS Biol.
, vol.8
-
-
Ferrai, C.1
Xie, S.Q.2
Luraghi, P.3
Munari, D.4
Ramirez, F.5
Branco, M.R.6
Pombo, A.7
Crippa, M.P.8
-
14
-
-
5444243359
-
Active genes dynamically colocalize to shared sites of ongoing transcription
-
Osborne, C. S., Chakalova, L., Brown, K. E., Carter, D., Horton, A., Debrand, E., Goyenechea, B., Mitchell, J. A., Lopes, S., Reik, W., and Fraser, P. (2004) Active genes dynamically colocalize to shared sites of ongoing transcription. Nat. Genet. 36, 1065-1071
-
(2004)
Nat. Genet.
, vol.36
, pp. 1065-1071
-
-
Osborne, C.S.1
Chakalova, L.2
Brown, K.E.3
Carter, D.4
Horton, A.5
Debrand, E.6
Goyenechea, B.7
Mitchell, J.A.8
Lopes, S.9
Reik, W.10
Fraser, P.11
-
15
-
-
33750212321
-
Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C)
-
Simonis, M., Klous, P., Splinter, E., Moshkin, Y., Willemsen, R., de Wit, E., van Steensel, B., and de Laat, W. (2006) Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C). Nat. Genet. 38, 1348-1354
-
(2006)
Nat. Genet.
, vol.38
, pp. 1348-1354
-
-
Simonis, M.1
Klous, P.2
Splinter, E.3
Moshkin, Y.4
Willemsen, R.5
De Wit, E.6
Van Steensel, B.7
De Laat, W.8
-
16
-
-
33750203582
-
Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra-and interchromosomal interactions
-
Zhao, Z., Tavoosidana, G., Sjölinder, M., Göndör, A., Mariano, P., Wang, S., Kanduri, C., Lezcano, M., Sandhu, K. S., Singh, U., Pant, V., Tiwari, V., Kurukuti, S., and Ohlsson, R. (2006) Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra-and interchromosomal interactions. Nat. Genet. 38, 1341-1347
-
(2006)
Nat. Genet.
, vol.38
, pp. 1341-1347
-
-
Zhao, Z.1
Tavoosidana, G.2
Sjölinder, M.3
Göndör, A.4
Mariano, P.5
Wang, S.6
Kanduri, C.7
Lezcano, M.8
Sandhu, K.S.9
Singh, U.10
Pant, V.11
Tiwari, V.12
Kurukuti, S.13
Ohlsson, R.14
-
17
-
-
20444494936
-
Interchromosomal associations between alternatively expressed loci
-
Spilianakis, C. G., Lalioti, M. D., Town, T., Lee, G. R., and Flavell, R. A. (2005) Interchromosomal associations between alternatively expressed loci. Nature 435, 637-645
-
(2005)
Nature
, vol.435
, pp. 637-645
-
-
Spilianakis, C.G.1
Lalioti, M.D.2
Town, T.3
Lee, G.R.4
Flavell, R.A.5
-
18
-
-
33746228114
-
Interchromosomal interactions and olfactory receptor choice
-
Lomvardas, S., Barnea, G., Pisapia, D. J., Mendelsohn, M., Kirkland, J., and Axel, R. (2006) Interchromosomal interactions and olfactory receptor choice. Cell 126, 403-413
-
(2006)
Cell
, vol.126
, pp. 403-413
-
-
Lomvardas, S.1
Barnea, G.2
Pisapia, D.J.3
Mendelsohn, M.4
Kirkland, J.5
Axel, R.6
-
19
-
-
33645814398
-
CTCF mediates interchromosomal colocalization between Igf2/H19 and Wsb1/Nf1
-
Ling, J. Q., Li, T., Hu, J. F., Vu, T. H., Chen, H. L., Qiu, X. W., Cherry, A. M., and Hoffman, A. R. (2006) CTCF mediates interchromosomal colocalization between Igf2/H19 and Wsb1/Nf1. Science 312, 269-272
-
(2006)
Science
, vol.312
, pp. 269-272
-
-
Ling, J.Q.1
Li, T.2
Hu, J.F.3
Vu, T.H.4
Chen, H.L.5
Qiu, X.W.6
Cherry, A.M.7
Hoffman, A.R.8
-
20
-
-
72749105143
-
Nonallelic transvection of multiple imprinted loci is organized by the H19 imprinting control region during germline development
-
Sandhu, K. S., Shi, C., Sjölinder, M., Zhao, Z., Göndör, A., Liu, L., Tiwari, V. K., Guibert, S., Emilsson, L., Imreh, M. P., and Ohlsson, R. (2009) Nonallelic transvection of multiple imprinted loci is organized by the H19 imprinting control region during germline development. Genes Dev. 23, 2598-2603
-
(2009)
Genes Dev.
, vol.23
, pp. 2598-2603
-
-
Sandhu, K.S.1
Shi, C.2
Sjölinder, M.3
Zhao, Z.4
Göndör, A.5
Liu, L.6
Tiwari, V.K.7
Guibert, S.8
Emilsson, L.9
Imreh, M.P.10
Ohlsson, R.11
-
21
-
-
77949919093
-
Interchromosomal association and gene regulation in trans
-
Williams, A., Spilianakis, C. G., and Flavell, R. A. (2010) Interchromosomal association and gene regulation in trans. Trends Genet. 26, 188-197
-
(2010)
Trends Genet.
, vol.26
, pp. 188-197
-
-
Williams, A.1
Spilianakis, C.G.2
Flavell, R.A.3
-
22
-
-
79960980390
-
Variegated gene expression caused by cell-specific long-range DNA interactions
-
Noordermeer, D., de Wit, E., Klous, P., van de Werken, H., Simonis, M., Lopez-Jones, M., Eussen, B., de Klein, A., Singer, R. H., and de Laat, W. (2011) Variegated gene expression caused by cell-specific long-range DNA interactions. Nat. Cell Biol. 13, 944-951
-
(2011)
Nat. Cell Biol.
, vol.13
, pp. 944-951
-
-
Noordermeer, D.1
De Wit, E.2
Klous, P.3
Van De Werken, H.4
Simonis, M.5
Lopez-Jones, M.6
Eussen, B.7
De Klein, A.8
Singer, R.H.9
De Laat, W.10
-
23
-
-
0037083376
-
Capturing chromosome conformation
-
Dekker, J., Rippe, K., Dekker, M., and Kleckner, N. (2002) Capturing chromosome conformation. Science 295, 1306-1311
-
(2002)
Science
, vol.295
, pp. 1306-1311
-
-
Dekker, J.1
Rippe, K.2
Dekker, M.3
Kleckner, N.4
-
24
-
-
84878007112
-
Comparative analysis of 4C-Seq data generated from enzyme-based and sonication-based methods
-
Gao, F., Wei, Z., Lu, W., and Wang, K. (2013) Comparative analysis of 4C-Seq data generated from enzyme-based and sonication-based methods. BMC Genomics 14, 345
-
(2013)
BMC Genomics
, vol.14
, pp. 345
-
-
Gao, F.1
Wei, Z.2
Lu, W.3
Wang, K.4
-
25
-
-
84876563518
-
The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells
-
Gao, F., Wei, Z., An, W., Wang, K., and Lu, W. (2013) The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells. Sci. Rep. 3, 1588
-
(2013)
Sci. Rep.
, vol.3
, pp. 1588
-
-
Gao, F.1
Wei, Z.2
An, W.3
Wang, K.4
Lu, W.5
-
26
-
-
33749400168
-
Chromosome conformation capture carbon copy (5C): A massively parallel solution for mapping interactions between genomic elements
-
Dostie, J., Richmond, T. A., Arnaout, R. A., Selzer, R. R., Lee, W. L., Honan, T. A., Rubio, E. D., Krumm, A., Lamb, J., Nusbaum, C., Green, R. D., and Dekker, J. (2006) Chromosome conformation capture carbon copy (5C): a massively parallel solution for mapping interactions between genomic elements. Genome Res. 16, 1299-1309
-
(2006)
Genome Res.
, vol.16
, pp. 1299-1309
-
-
Dostie, J.1
Richmond, T.A.2
Arnaout, R.A.3
Selzer, R.R.4
Lee, W.L.5
Honan, T.A.6
Rubio, E.D.7
Krumm, A.8
Lamb, J.9
Nusbaum, C.10
Green, R.D.11
Dekker, J.12
-
27
-
-
84855297335
-
A decade of 3C technologies: Insights into nuclear organization
-
de Wit, E., and de Laat, W. (2012) A decade of 3C technologies: insights into nuclear organization. Genes Dev. 26, 11-24
-
(2012)
Genes Dev.
, vol.26
, pp. 11-24
-
-
De Wit, E.1
De Laat, W.2
-
28
-
-
77952744854
-
A threedimensional model of the yeast genome
-
Duan, Z., Andronescu, M., Schutz, K., McIlwain, S., Kim, Y. J., Lee, C., Shendure, J., Fields, S., Blau, C. A., and Noble, W. S. (2010) A threedimensional model of the yeast genome. Nature 465, 363-367
-
(2010)
Nature
, vol.465
, pp. 363-367
-
-
Duan, Z.1
Andronescu, M.2
Schutz, K.3
McIlwain, S.4
Kim, Y.J.5
Lee, C.6
Shendure, J.7
Fields, S.8
Blau, C.A.9
Noble, W.S.10
-
29
-
-
70449103609
-
An oestrogen-receptor-α-bound human chromatin interactome
-
Fullwood, M. J., Liu, M. H., Pan, Y. F., Liu, J., Xu, H., Mohamed, Y. B., Orlov, Y. L., Velkov, S., Ho, A., Mei, P. H., Chew, E. G., Huang, P. Y., Welboren, W. J., Han, Y., Ooi, H. S., Ariyaratne, P. N., Vega, V. B., Luo, Y., Tan, P. Y., Choy, P. Y., Wansa, K. D., Zhao, B., Lim, K. S., Leow, S. C., Yow, J. S., Joseph, R., Li, H., Desai, K. V., Thomsen, J. S., Lee, Y. K., Karuturi, R. K., Herve, T., Bourque, G., Stunnenberg, H. G., Ruan, X., Cacheux-Rataboul, V., Sung, W. K., Liu, E. T., Wei, C. L., Cheung, E., and Ruan, Y. (2009) An oestrogen-receptor-α-bound human chromatin interactome. Nature 462, 58-64
-
(2009)
Nature
, vol.462
, pp. 58-64
-
-
Fullwood, M.J.1
Liu, M.H.2
Pan, Y.F.3
Liu, J.4
Xu, H.5
Mohamed, Y.B.6
Orlov, Y.L.7
Velkov, S.8
Ho, A.9
Mei, P.H.10
Chew, E.G.11
Huang, P.Y.12
Welboren, W.J.13
Han, Y.14
Ooi, H.S.15
Ariyaratne, P.N.16
Vega, V.B.17
Luo, Y.18
Tan, P.Y.19
Choy, P.Y.20
Wansa, K.D.21
Zhao, B.22
Lim, K.S.23
Leow, S.C.24
Yow, J.S.25
Joseph, R.26
Li, H.27
Desai, K.V.28
Thomsen, J.S.29
Lee, Y.K.30
Karuturi, R.K.31
Herve, T.32
Bourque, G.33
Stunnenberg, H.G.34
Ruan, X.35
Cacheux-Rataboul, V.36
Sung, W.K.37
Liu, E.T.38
Wei, C.L.39
Cheung, E.40
Ruan, Y.41
more..
-
30
-
-
79959699992
-
CTCF-mediated functional chromatin interactome in pluripotent cells
-
Handoko, L., Xu, H., Li, G., Ngan, C. Y., Chew, E., Schnapp, M., Lee, C. W., Ye, C., Ping, J. L., Mulawadi, F., Wong, E., Sheng, J., Zhang, Y., Poh, T., Chan, C. S., Kunarso, G., Shahab, A., Bourque, G., Cacheux-Rataboul, V., Sung, W. K., Ruan, Y., and Wei, C. L. (2011) CTCF-mediated functional chromatin interactome in pluripotent cells. Nat. Genet. 43, 630-638
-
(2011)
Nat. Genet.
, vol.43
, pp. 630-638
-
-
Handoko, L.1
Xu, H.2
Li, G.3
Ngan, C.Y.4
Chew, E.5
Schnapp, M.6
Lee, C.W.7
Ye, C.8
Ping, J.L.9
Mulawadi, F.10
Wong, E.11
Sheng, J.12
Zhang, Y.13
Poh, T.14
Chan, C.S.15
Kunarso, G.16
Shahab, A.17
Bourque, G.18
Cacheux-Rataboul, V.19
Sung, W.K.20
Ruan, Y.21
Wei, C.L.22
more..
-
31
-
-
84862908850
-
Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation
-
Li, G., Ruan, X., Auerbach, R. K., Sandhu, K. S., Zheng, M., Wang, P., Poh, H. M., Goh, Y., Lim, J., Zhang, J., Sim, H. S., Peh, S. Q., Mulawadi, F. H., Ong, C. T., Orlov, Y. L., Hong, S., Zhang, Z., Landt, S., Raha, D., Euskirchen, G., Wei, C. L., Ge, W., Wang, H., Davis, C., Fisher-Aylor, K. I., Mortazavi, A., Gerstein, M., Gingeras, T., Wold, B., Sun, Y., Fullwood, M. J., Cheung, E., Liu, E., Sung, W. K., Snyder, M., and Ruan, Y. (2012) Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation. Cell 148, 84-98
-
(2012)
Cell
, vol.148
, pp. 84-98
-
-
Li, G.1
Ruan, X.2
Auerbach, R.K.3
Sandhu, K.S.4
Zheng, M.5
Wang, P.6
Poh, H.M.7
Goh, Y.8
Lim, J.9
Zhang, J.10
Sim, H.S.11
Peh, S.Q.12
Mulawadi, F.H.13
Ong, C.T.14
Orlov, Y.L.15
Hong, S.16
Zhang, Z.17
Landt, S.18
Raha, D.19
Euskirchen, G.20
Wei, C.L.21
Ge, W.22
Wang, H.23
Davis, C.24
Fisher-Aylor, K.I.25
Mortazavi, A.26
Gerstein, M.27
Gingeras, T.28
Wold, B.29
Sun, Y.30
Fullwood, M.J.31
Cheung, E.32
Liu, E.33
Sung, W.K.34
Snyder, M.35
Ruan, Y.36
more..
-
32
-
-
0027305616
-
Fluorescent labeling of nascent RNA reveals transcription by RNA polymerase II in domains scattered throughout the nucleus
-
Wansink, D. G., Schul, W., van der Kraan, I., van Steensel, B., van Driel, R., and de Jong, L. (1993) Fluorescent labeling of nascent RNA reveals transcription by RNA polymerase II in domains scattered throughout the nucleus. J. Cell Biol. 122, 283-293
-
(1993)
J. Cell Biol.
, vol.122
, pp. 283-293
-
-
Wansink, D.G.1
Schul, W.2
Van Der Kraan, I.3
Van Steensel, B.4
Van Driel, R.5
De Jong, L.6
-
33
-
-
0027499230
-
Visualization of focal sites of transcription within human nuclei
-
Jackson, D. A., Hassan, A. B., Errington, R. J., and Cook, P. R. (1993) Visualization of focal sites of transcription within human nuclei. EMBO J. 12, 1059-1065
-
(1993)
EMBO J.
, vol.12
, pp. 1059-1065
-
-
Jackson, D.A.1
Hassan, A.B.2
Errington, R.J.3
Cook, P.R.4
-
34
-
-
0033561153
-
Regional specialization in human nuclei: Visualization of discrete sites of transcription by RNA polymerase III
-
Pombo, A., Jackson, D. A., Hollinshead, M., Wang, Z., Roeder, R. G., and Cook, P. R. (1999) Regional specialization in human nuclei: visualization of discrete sites of transcription by RNA polymerase III. EMBO J. 18, 2241-2253
-
(1999)
EMBO J.
, vol.18
, pp. 2241-2253
-
-
Pombo, A.1
Jackson, D.A.2
Hollinshead, M.3
Wang, Z.4
Roeder, R.G.5
Cook, P.R.6
-
35
-
-
0031813779
-
Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei
-
Jackson, D. A., Iborra, F. J., Manders, E. M., and Cook, P. R. (1998) Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei. Mol. Biol. Cell 9, 1523-1536
-
(1998)
Mol. Biol. Cell
, vol.9
, pp. 1523-1536
-
-
Jackson, D.A.1
Iborra, F.J.2
Manders, E.M.3
Cook, P.R.4
-
36
-
-
0030589556
-
The topology of transcription by immobilized polymerases
-
Iborra, F. J., Pombo, A., McManus, J., Jackson, D. A., and Cook, P. R. (1996) The topology of transcription by immobilized polymerases. Exp. Cell Res. 229, 167-173
-
(1996)
Exp. Cell Res.
, vol.229
, pp. 167-173
-
-
Iborra, F.J.1
Pombo, A.2
McManus, J.3
Jackson, D.A.4
Cook, P.R.5
-
37
-
-
0029973080
-
Active RNA polymerases are localized within discrete transcription "factories" in human nuclei
-
Iborra, F. J., Pombo, A., Jackson, D. A., and Cook, P. R. (1996) Active RNA polymerases are localized within discrete transcription " factories" in human nuclei. J. Cell Sci. 109, 1427-1436
-
(1996)
J. Cell Sci.
, vol.109
, pp. 1427-1436
-
-
Iborra, F.J.1
Pombo, A.2
Jackson, D.A.3
Cook, P.R.4
-
38
-
-
38149133051
-
Transcription factories are nuclear subcompartments that remain in the absence of transcription
-
Mitchell, J. A., and Fraser, P. (2008) Transcription factories are nuclear subcompartments that remain in the absence of transcription. Genes Dev. 22, 20-25
-
(2008)
Genes Dev.
, vol.22
, pp. 20-25
-
-
Mitchell, J.A.1
Fraser, P.2
-
39
-
-
0036842123
-
Predicting three-dimensional genome structure from transcriptional activity
-
Cook, P. R. (2002) Predicting three-dimensional genome structure from transcriptional activity. Nat. Genet. 32, 347-352
-
(2002)
Nat. Genet.
, vol.32
, pp. 347-352
-
-
Cook, P.R.1
-
40
-
-
73349090560
-
Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells
-
Schoenfelder, S., Sexton, T., Chakalova, L., Cope, N. F., Horton, A., Andrews, S., Kurukuti, S., Mitchell, J. A., Umlauf, D., Dimitrova, D. S., Eskiw, C. H., Luo, Y., Wei, C. L., Ruan, Y., Bieker, J. J., and Fraser, P. (2010) Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells. Nat. Genet. 42, 53-61
-
(2010)
Nat. Genet.
, vol.42
, pp. 53-61
-
-
Schoenfelder, S.1
Sexton, T.2
Chakalova, L.3
Cope, N.F.4
Horton, A.5
Andrews, S.6
Kurukuti, S.7
Mitchell, J.A.8
Umlauf, D.9
Dimitrova, D.S.10
Eskiw, C.H.11
Luo, Y.12
Wei, C.L.13
Ruan, Y.14
Bieker, J.J.15
Fraser, P.16
-
41
-
-
34548210885
-
Myc dynamically and preferentially relocates to a transcription factory occupied by Igh
-
Osborne, C. S., Chakalova, L., Mitchell, J. A., Horton, A., Wood, A. L., Bolland, D. J., Corcoran, A. E., and Fraser, P. (2007) Myc dynamically and preferentially relocates to a transcription factory occupied by Igh. PLoS Biol. 5, e192
-
(2007)
PLoS Biol.
, vol.5
-
-
Osborne, C.S.1
Chakalova, L.2
Mitchell, J.A.3
Horton, A.4
Wood, A.L.5
Bolland, D.J.6
Corcoran, A.E.7
Fraser, P.8
-
42
-
-
45749154811
-
Maintenance of long-range DNA interactions after inhibition of ongoing RNA polymerase II transcription
-
Palstra, R. J., Simonis, M., Klous, P., Brasset, E., Eijkelkamp, B., and de Laat, W. (2008) Maintenance of long-range DNA interactions after inhibition of ongoing RNA polymerase II transcription. PLoS ONE 3, e1661
-
(2008)
PLoS ONE
, vol.3
-
-
Palstra, R.J.1
Simonis, M.2
Klous, P.3
Brasset, E.4
Eijkelkamp, B.5
De Laat, W.6
-
43
-
-
52249111620
-
Association between active genes occurs at nuclear speckles and is modulated by chromatin environment
-
Brown, J. M., Green, J., das Neves, R. P., Wallace, H. A., Smith, A. J., Hughes, J., Gray, N., Taylor, S., Wood, W. G., Higgs, D. R., Iborra, F. J., and Buckle, V. J. (2008) Association between active genes occurs at nuclear speckles and is modulated by chromatin environment. J. Cell Biol. 182, 1083-1097
-
(2008)
J. Cell Biol.
, vol.182
, pp. 1083-1097
-
-
Brown, J.M.1
Green, J.2
Das Neves, R.P.3
Wallace, H.A.4
Smith, A.J.5
Hughes, J.6
Gray, N.7
Taylor, S.8
Wood, W.G.9
Higgs, D.R.10
Iborra, F.J.11
Buckle, V.J.12
-
44
-
-
1842861733
-
Fixationinduced redistribution of hyperphosphorylated RNA polymerase II in the nucleus of human cells
-
Guillot, P. V., Xie, S. Q., Hollinshead, M., and Pombo, A. (2004) Fixationinduced redistribution of hyperphosphorylated RNA polymerase II in the nucleus of human cells. Exp. Cell Res. 295, 460-468
-
(2004)
Exp. Cell Res.
, vol.295
, pp. 460-468
-
-
Guillot, P.V.1
Xie, S.Q.2
Hollinshead, M.3
Pombo, A.4
-
46
-
-
44149106396
-
Similar active genes cluster in specialized transcription factories
-
Xu, M., and Cook, P. R. (2008) Similar active genes cluster in specialized transcription factories. J. Cell Biol. 181, 615-623
-
(2008)
J. Cell Biol.
, vol.181
, pp. 615-623
-
-
Xu, M.1
Cook, P.R.2
-
47
-
-
84870495610
-
TNF-α signals through specialized factories where responsive coding and miRNA genes are transcribed
-
Papantonis, A., Kohro, T., Baboo, S., Larkin, J. D., Deng, B., Short, P., Tsutsumi, S., Taylor, S., Kanki, Y., Kobayashi, M., Li, G., Poh, H. M., Ruan, X., Aburatani, H., Ruan, Y., Kodama, T., Wada, Y., and Cook, P. R. (2012) TNF-α signals through specialized factories where responsive coding and miRNA genes are transcribed. EMBO J. 31, 4404-4414
-
(2012)
EMBO J.
, vol.31
, pp. 4404-4414
-
-
Papantonis, A.1
Kohro, T.2
Baboo, S.3
Larkin, J.D.4
Deng, B.5
Short, P.6
Tsutsumi, S.7
Taylor, S.8
Kanki, Y.9
Kobayashi, M.10
Li, G.11
Poh, H.M.12
Ruan, X.13
Aburatani, H.14
Ruan, Y.15
Kodama, T.16
Wada, Y.17
Cook, P.R.18
-
48
-
-
79251579996
-
Nuclear lamins
-
Dechat, T., Adam, S. A., Taimen, P., Shimi, T., and Goldman, R. D. (2010) Nuclear lamins. Cold Spring Harb. Perspect. Biol. 2, a000547
-
(2010)
Cold Spring Harb. Perspect. Biol.
, vol.2
-
-
Dechat, T.1
Adam, S.A.2
Taimen, P.3
Shimi, T.4
Goldman, R.D.5
-
49
-
-
39149108125
-
Intermediate filaments: Versatile building blocks of cell structure
-
Goldman, R. D., Grin, B., Mendez, M. G., and Kuczmarski, E. R. (2008) Intermediate filaments: versatile building blocks of cell structure. Curr. Opin. Cell Biol. 20, 28-34
-
(2008)
Curr. Opin. Cell Biol.
, vol.20
, pp. 28-34
-
-
Goldman, R.D.1
Grin, B.2
Mendez, M.G.3
Kuczmarski, E.R.4
-
50
-
-
33645472801
-
Amitotic lamin B matrix induced by RanGTP required for spindle assembly
-
Tsai, M. Y., Wang, S., Heidinger, J. M., Shumaker, D. K., Adam, S. A., Goldman, R. D., and Zheng, Y. (2006)Amitotic lamin B matrix induced by RanGTP required for spindle assembly. Science 311, 1887-1893
-
(2006)
Science
, vol.311
, pp. 1887-1893
-
-
Tsai, M.Y.1
Wang, S.2
Heidinger, J.M.3
Shumaker, D.K.4
Adam, S.A.5
Goldman, R.D.6
Zheng, Y.7
-
51
-
-
42449134912
-
The highly conserved nuclear lamin Ig-fold binds to PCNA: Its role in DNA replication
-
Shumaker, D. K., Solimando, L., Sengupta, K., Shimi, T., Adam, S. A., Grunwald, A., Strelkov, S. V., Aebi, U., Cardoso, M. C., and Goldman, R. D. (2008) The highly conserved nuclear lamin Ig-fold binds to PCNA: its role in DNA replication. J. Cell Biol. 181, 269-280
-
(2008)
J. Cell Biol.
, vol.181
, pp. 269-280
-
-
Shumaker, D.K.1
Solimando, L.2
Sengupta, K.3
Shimi, T.4
Adam, S.A.5
Grunwald, A.6
Strelkov, S.V.7
Aebi, U.8
Cardoso, M.C.9
Goldman, R.D.10
-
52
-
-
38349043904
-
A genetic locus targeted to the nuclear periphery in living cells maintains its transcriptional competence
-
Kumaran, R. I., and Spector, D. L. (2008) A genetic locus targeted to the nuclear periphery in living cells maintains its transcriptional competence. J. Cell Biol. 180, 51-65
-
(2008)
J. Cell Biol.
, vol.180
, pp. 51-65
-
-
Kumaran, R.I.1
Spector, D.L.2
-
53
-
-
33748289518
-
Characterization of the Drosophila melanogaster genome at the nuclear lamina
-
Pickersgill, H., Kalverda, B., de Wit, E., Talhout, W., Fornerod, M., and van Steensel, B. (2006) Characterization of the Drosophila melanogaster genome at the nuclear lamina. Nat. Genet. 38, 1005-1014
-
(2006)
Nat. Genet.
, vol.38
, pp. 1005-1014
-
-
Pickersgill, H.1
Kalverda, B.2
De Wit, E.3
Talhout, W.4
Fornerod, M.5
Van Steensel, B.6
-
54
-
-
45149084413
-
Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
-
Guelen, L., Pagie, L., Brasset, E., Meuleman, W., Faza, M. B., Talhout, W., Eussen, B. H., de Klein, A., Wessels, L., de Laat, W., and van Steensel, B. (2008) Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions. Nature 453, 948-951
-
(2008)
Nature
, vol.453
, pp. 948-951
-
-
Guelen, L.1
Pagie, L.2
Brasset, E.3
Meuleman, W.4
Faza, M.B.5
Talhout, W.6
Eussen, B.H.7
De Klein, A.8
Wessels, L.9
De Laat, W.10
Van Steensel, B.11
-
55
-
-
33847345531
-
Defects in lamin B1 expression or processing affect interphase chromosome position and gene expression
-
Malhas, A., Lee, C. F., Sanders, R., Saunders, N. J., and Vaux, D. J. (2007) Defects in lamin B1 expression or processing affect interphase chromosome position and gene expression. J. Cell Biol. 176, 593-603
-
(2007)
J. Cell Biol.
, vol.176
, pp. 593-603
-
-
Malhas, A.1
Lee, C.F.2
Sanders, R.3
Saunders, N.J.4
Vaux, D.J.5
-
56
-
-
33947357081
-
Primary laminopathy fibroblasts display altered genome organization and apoptosis
-
Meaburn, K. J., Cabuy, E., Bonne, G., Levy, N., Morris, G. E., Novelli, G., Kill, I. R., and Bridger, J. M. (2007) Primary laminopathy fibroblasts display altered genome organization and apoptosis. Aging Cell 6, 139-153
-
(2007)
Aging Cell
, vol.6
, pp. 139-153
-
-
Meaburn, K.J.1
Cabuy, E.2
Bonne, G.3
Levy, N.4
Morris, G.E.5
Novelli, G.6
Kill, I.R.7
Bridger, J.M.8
-
57
-
-
58049195492
-
The A-and B-type nuclear lamin networks: Microdomains involved in chromatin organization and transcription
-
Shimi, T., Pfleghaar, K., Kojima, S., Pack, C. G., Solovei, I., Goldman, A. E., Adam, S. A., Shumaker, D. K., Kinjo, M., Cremer, T., and Goldman, R. D. (2008) The A-and B-type nuclear lamin networks: microdomains involved in chromatin organization and transcription. Genes Dev. 22, 3409-3421
-
(2008)
Genes Dev.
, vol.22
, pp. 3409-3421
-
-
Shimi, T.1
Pfleghaar, K.2
Kojima, S.3
Pack, C.G.4
Solovei, I.5
Goldman, A.E.6
Adam, S.A.7
Shumaker, D.K.8
Kinjo, M.9
Cremer, T.10
Goldman, R.D.11
-
58
-
-
3543046143
-
Differences in centromere positioning of cycling and postmitotic human cell types
-
Solovei, I., Schermelleh, L., Düring, K., Engelhardt, A., Stein, S., Cremer, C., and Cremer, T. (2004) Differences in centromere positioning of cycling and postmitotic human cell types. Chromosoma 112, 410-423
-
(2004)
Chromosoma
, vol.112
, pp. 410-423
-
-
Solovei, I.1
Schermelleh, L.2
Düring, K.3
Engelhardt, A.4
Stein, S.5
Cremer, C.6
Cremer, T.7
-
59
-
-
74849107200
-
Loss of A-type lamins and genomic instability
-
Gonzalez-Suarez, I., Redwood, A. B., and Gonzalo, S. (2009) Loss of A-type lamins and genomic instability. Cell Cycle 8, 3860-3865
-
(2009)
Cell Cycle
, vol.8
, pp. 3860-3865
-
-
Gonzalez-Suarez, I.1
Redwood, A.B.2
Gonzalo, S.3
-
60
-
-
41949121084
-
Recruitment to the nuclear periphery can alter expression of genes in human cells
-
Finlan, L. E., Sproul, D., Thomson, I., Boyle, S., Kerr, E., Perry, P., Ylstra, B., Chubb, J. R., and Bickmore, W. A. (2008) Recruitment to the nuclear periphery can alter expression of genes in human cells. PLoS Genet. 4, e1000039
-
(2008)
PLoS Genet.
, vol.4
-
-
Finlan, L.E.1
Sproul, D.2
Thomson, I.3
Boyle, S.4
Kerr, E.5
Perry, P.6
Ylstra, B.7
Chubb, J.R.8
Bickmore, W.A.9
-
61
-
-
0033083793
-
Dynamic repositioning of genes in the nucleus of lymphocytes preparing for cell division
-
Brown, K. E., Baxter, J., Graf, D., Merkenschlager, M., and Fisher, A. G. (1999) Dynamic repositioning of genes in the nucleus of lymphocytes preparing for cell division. Mol. Cell 3, 207-217
-
(1999)
Mol. Cell
, vol.3
, pp. 207-217
-
-
Brown, K.E.1
Baxter, J.2
Graf, D.3
Merkenschlager, M.4
Fisher, A.G.5
-
62
-
-
67349228524
-
RAG-1 and ATM coordinate monoallelic recombination and nuclear positioning of immunoglobulin loci
-
Hewitt, S. L., Yin, B., Ji, Y., Chaumeil, J., Marszalek, K., Tenthorey, J., Salvagiotto, G., Steinel, N., Ramsey, L. B., Ghysdael, J., Farrar, M. A., Sleckman, B. P., Schatz, D. G., Busslinger, M., Bassing, C. H., and Skok, J. A. (2009) RAG-1 and ATM coordinate monoallelic recombination and nuclear positioning of immunoglobulin loci. Nat. Immunol. 10, 655-664
-
(2009)
Nat. Immunol.
, vol.10
, pp. 655-664
-
-
Hewitt, S.L.1
Yin, B.2
Ji, Y.3
Chaumeil, J.4
Marszalek, K.5
Tenthorey, J.6
Salvagiotto, G.7
Steinel, N.8
Ramsey, L.B.9
Ghysdael, J.10
Farrar, M.A.11
Sleckman, B.P.12
Schatz, D.G.13
Busslinger, M.14
Bassing, C.H.15
Skok, J.A.16
-
63
-
-
77955875047
-
The role of mechanistic factors in promoting chromosomal translocations found in lymphoid and other cancers
-
Zhang, Y., Gostissa, M., Hildebrand, D. G., Becker, M. S., Boboila, C., Chiarle, R., Lewis, S., and Alt, F. W. (2010) The role of mechanistic factors in promoting chromosomal translocations found in lymphoid and other cancers. Adv. Immunol. 106, 93-133
-
(2010)
Adv. Immunol.
, vol.106
, pp. 93-133
-
-
Zhang, Y.1
Gostissa, M.2
Hildebrand, D.G.3
Becker, M.S.4
Boboila, C.5
Chiarle, R.6
Lewis, S.7
Alt, F.W.8
-
64
-
-
77950955761
-
Origin of chromosomal translocations in lymphoid cancer
-
Nussenzweig, A., and Nussenzweig, M. C. (2010) Origin of chromosomal translocations in lymphoid cancer. Cell 141, 27-38
-
(2010)
Cell
, vol.141
, pp. 27-38
-
-
Nussenzweig, A.1
Nussenzweig, M.C.2
-
65
-
-
57349185631
-
Human chromosomal translocations at CpG sites and a theoretical basis for their lineage and stage specificity
-
Tsai, A. G., Lu, H., Raghavan, S. C., Muschen, M., Hsieh, C. L., and Lieber, M. R. (2008) Human chromosomal translocations at CpG sites and a theoretical basis for their lineage and stage specificity. Cell 135, 1130-1142
-
(2008)
Cell
, vol.135
, pp. 1130-1142
-
-
Tsai, A.G.1
Lu, H.2
Raghavan, S.C.3
Muschen, M.4
Hsieh, C.L.5
Lieber, M.R.6
-
66
-
-
80053502216
-
Translocation-capture sequencing reveals the extent and nature of chromosomal rearrangements in B lymphocytes
-
Klein, I. A., Resch, W., Jankovic, M., Oliveira, T., Yamane, A., Nakahashi, H., Di Virgilio, M., Bothmer, A., Nussenzweig, A., Robbiani, D. F., Casellas, R., and Nussenzweig, M. C. (2011) Translocation-capture sequencing reveals the extent and nature of chromosomal rearrangements in B lymphocytes. Cell 147, 95-106
-
(2011)
Cell
, vol.147
, pp. 95-106
-
-
Klein, I.A.1
Resch, W.2
Jankovic, M.3
Oliveira, T.4
Yamane, A.5
Nakahashi, H.6
Di Virgilio, M.7
Bothmer, A.8
Nussenzweig, A.9
Robbiani, D.F.10
Casellas, R.11
Nussenzweig, M.C.12
-
67
-
-
0036903167
-
Transcription-based model for the induction of interchromosomal exchange events by ionizing irradiation in mammalian cell lines that undergo necrosis
-
Radford, I. R. (2002) Transcription-based model for the induction of interchromosomal exchange events by ionizing irradiation in mammalian cell lines that undergo necrosis. Int. J. Radiat. Biol. 78, 1081-1093
-
(2002)
Int. J. Radiat. Biol.
, vol.78
, pp. 1081-1093
-
-
Radford, I.R.1
-
68
-
-
84859474968
-
DNA damage defines sites of recurrent chromosomal translocations in B lymphocytes
-
Hakim, O., Resch, W., Yamane, A., Klein, I., Kieffer-Kwon, K. R., Jankovic, M., Oliveira, T., Bothmer, A., Voss, T. C., Ansarah-Sobrinho, C., Mathe, E., Liang, G., Cobell, J., Nakahashi, H., Robbiani, D. F., Nussenzweig, A., Hager, G. L., Nussenzweig, M. C., and Casellas, R. (2012) DNA damage defines sites of recurrent chromosomal translocations in B lymphocytes. Nature 484, 69-74
-
(2012)
Nature
, vol.484
, pp. 69-74
-
-
Hakim, O.1
Resch, W.2
Yamane, A.3
Klein, I.4
Kieffer-Kwon, K.R.5
Jankovic, M.6
Oliveira, T.7
Bothmer, A.8
Voss, T.C.9
Ansarah-Sobrinho, C.10
Mathe, E.11
Liang, G.12
Cobell, J.13
Nakahashi, H.14
Robbiani, D.F.15
Nussenzweig, A.16
Hager, G.L.17
Nussenzweig, M.C.18
Casellas, R.19
-
69
-
-
84862778059
-
Spatial organization of the mouse genome and its role in recurrent chromosomal translocations
-
Zhang, Y., McCord, R. P., Ho, Y. J., Lajoie, B. R., Hildebrand, D. G., Simon, A. C., Becker, M. S., Alt, F. W., and Dekker, J. (2012) Spatial organization of the mouse genome and its role in recurrent chromosomal translocations. Cell 148, 908-921
-
(2012)
Cell
, vol.148
, pp. 908-921
-
-
Zhang, Y.1
McCord, R.P.2
Ho, Y.J.3
Lajoie, B.R.4
Hildebrand, D.G.5
Simon, A.C.6
Becker, M.S.7
Alt, F.W.8
Dekker, J.9
-
70
-
-
0141730403
-
The β-globin nuclear compartment in development and erythroid differentiation
-
Palstra, R. J., Tolhuis, B., Splinter, E., Nijmeijer, R., Grosveld, F., and de Laat, W. (2003) The β-globin nuclear compartment in development and erythroid differentiation. Nat. Genet. 35, 190-194
-
(2003)
Nat. Genet.
, vol.35
, pp. 190-194
-
-
Palstra, R.J.1
Tolhuis, B.2
Splinter, E.3
Nijmeijer, R.4
Grosveld, F.5
De Laat, W.6
-
71
-
-
0028853170
-
NF-E2 and GATA binding motifs are required for the formation of DNase i hypersensitive site 4 of the human β-globin locus control region
-
Stamatoyannopoulos, J. A., Goodwin, A., Joyce, T., and Lowrey, C. H. (1995) NF-E2 and GATA binding motifs are required for the formation of DNase I hypersensitive site 4 of the human β-globin locus control region. EMBO J. 14, 106-116
-
(1995)
EMBO J.
, vol.14
, pp. 106-116
-
-
Stamatoyannopoulos, J.A.1
Goodwin, A.2
Joyce, T.3
Lowrey, C.H.4
-
72
-
-
5444255213
-
The active spatial organization of the β-globin locus requires the transcription factor EKLF
-
Drissen, R., Palstra, R. J., Gillemans, N., Splinter, E., Grosveld, F., Philipsen, S., and de Laat, W. (2004) The active spatial organization of the β-globin locus requires the transcription factor EKLF. Genes Dev. 18, 2485-2490
-
(2004)
Genes Dev.
, vol.18
, pp. 2485-2490
-
-
Drissen, R.1
Palstra, R.J.2
Gillemans, N.3
Splinter, E.4
Grosveld, F.5
Philipsen, S.6
De Laat, W.7
-
73
-
-
13244272059
-
Proximity among distant regulatory elements at the β-globin locus requires GATA-1 and FOG-1
-
Vakoc, C. R., Letting, D. L., Gheldof, N., Sawado, T., Bender, M. A., Groudine, M., Weiss, M. J., Dekker, J., and Blobel, G. A. (2005) Proximity among distant regulatory elements at the β-globin locus requires GATA-1 and FOG-1. Mol. Cell 17, 453-462
-
(2005)
Mol. Cell
, vol.17
, pp. 453-462
-
-
Vakoc, C.R.1
Letting, D.L.2
Gheldof, N.3
Sawado, T.4
Bender, M.A.5
Groudine, M.6
Weiss, M.J.7
Dekker, J.8
Blobel, G.A.9
-
74
-
-
84887852466
-
Genome-wide chromatin interactions of the Nanog locus in pluripotency, differentiation, and reprogramming
-
Apostolou, E., Ferrari, F., Walsh, R. M., Bar-Nur, O., Stadtfeld, M., Cheloufi, S., Stuart, H. T., Polo, J. M., Ohsumi, T. K., Borowsky, M. L., Kharchenko, P. V., Park, P. J., and Hochedlinger, K. (2013) Genome-wide chromatin interactions of the Nanog locus in pluripotency, differentiation, and reprogramming. Cell Stem Cell 12, 699-712
-
(2013)
Cell Stem Cell
, vol.12
, pp. 699-712
-
-
Apostolou, E.1
Ferrari, F.2
Walsh, R.M.3
Bar-Nur, O.4
Stadtfeld, M.5
Cheloufi, S.6
Stuart, H.T.7
Polo, J.M.8
Ohsumi, T.K.9
Borowsky, M.L.10
Kharchenko, P.V.11
Park, P.J.12
Hochedlinger, K.13
-
75
-
-
84887835943
-
Klf4 organizes long-range chromosomal interactions with the Oct4 locus in reprogramming and pluripotency
-
10.1016/j.stem.2013.05.010
-
Wei, Z., Gao, F., Kim, S., Yang, H., Lyu, J., An, W., Wang, K., and Lu, W. (2013) Klf4 organizes long-range chromosomal interactions with the Oct4 locus in reprogramming and pluripotency. Cell Stem Cell 10.1016/j.stem.2013.05.010
-
(2013)
Cell Stem Cell
-
-
Wei, Z.1
Gao, F.2
Kim, S.3
Yang, H.4
Lyu, J.5
An, W.6
Wang, K.7
Lu, W.8
-
76
-
-
84893155560
-
Intrachromosomal looping is required for activation of endogenous pluripotency genes during reprogramming
-
10.1016/j.stem.2013.05.012
-
Zhang, H., Jiao, W., Sun, L., Fan, J., Chen, M., Wang, H., Xu, X., Shen, A., Li, T., Niu, B., Ge, S., Li, W., Cui, J., Wang, G., Sun, J., Fan, X., Hu, X., Mrsny, Randall J., Hoffman, Andrew R., and Hu, J.-F. (2013) Intrachromosomal looping is required for activation of endogenous pluripotency genes during reprogramming. Cell Stem Cell 10.1016/j.stem.2013.05.012
-
(2013)
Cell Stem Cell
-
-
Zhang, H.1
Jiao, W.2
Sun, L.3
Fan, J.4
Chen, M.5
Wang, H.6
Xu, X.7
Shen, A.8
Li, T.9
Niu, B.10
Ge, S.11
Li, W.12
Cui, J.13
Wang, G.14
Sun, J.15
Fan, X.16
Hu, X.17
Mrsny Randall, J.18
Hoffman Andrew, R.19
Hu, J.-F.20
more..
-
77
-
-
67549119096
-
CTCF: Master weaver of the genome
-
Phillips, J. E., and Corces, V. G. (2009) CTCF: master weaver of the genome. Cell 137, 1194-1211
-
(2009)
Cell
, vol.137
, pp. 1194-1211
-
-
Phillips, J.E.1
Corces, V.G.2
-
78
-
-
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., Loh, Y. H., Yeo, H. C., Yeo, Z. X., Narang, V., Govindarajan, K. R., Leong, B., Shahab, A., Ruan, Y., Bourque, G., Sung, W. K., Clarke, N. D., Wei, C. L., and Ng, H. H. (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
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..
-
79
-
-
84857251182
-
CTCF: Insights into insulator function during development
-
Herold, M., Bartkuhn, M., and Renkawitz, R. (2012) CTCF: insights into insulator function during development. Development 139, 1045-1057
-
(2012)
Development
, vol.139
, pp. 1045-1057
-
-
Herold, M.1
Bartkuhn, M.2
Renkawitz, R.3
-
80
-
-
67650076211
-
The pluripotency factor Oct4 interacts with Ctcf and also controls X-chromosome pairing and counting
-
Donohoe, M. E., Silva, S. S., Pinter, S. F., Xu, N., and Lee, J. T. (2009) The pluripotency factor Oct4 interacts with Ctcf and also controls X-chromosome pairing and counting. Nature 460, 128-132
-
(2009)
Nature
, vol.460
, pp. 128-132
-
-
Donohoe, M.E.1
Silva, S.S.2
Pinter, S.F.3
Xu, N.4
Lee, J.T.5
-
81
-
-
33748259774
-
CTCF mediates long-range chromatin looping and local histone modification in the β-globin locus
-
Splinter, E., Heath, H., Kooren, J., Palstra, R. J., Klous, P., Grosveld, F., Galjart, N., and de Laat, W. (2006) CTCF mediates long-range chromatin looping and local histone modification in the β-globin locus. Genes Dev. 20, 2349-2354
-
(2006)
Genes Dev.
, vol.20
, pp. 2349-2354
-
-
Splinter, E.1
Heath, H.2
Kooren, J.3
Palstra, R.J.4
Klous, P.5
Grosveld, F.6
Galjart, N.7
De Laat, W.8
-
82
-
-
78650240738
-
TheXas model for RNA's niche in epigenomic regulation
-
Lee, J. T. (2010) TheXas model for RNA's niche in epigenomic regulation. Cold Spring Harb. Perspect. Biol. 2, a003749
-
(2010)
Cold Spring Harb. Perspect. Biol.
, vol.2
-
-
Lee, J.T.1
-
83
-
-
0032932528
-
Tsix, a gene antisense to Xist at the X-inactivation centre
-
Lee, J. T., Davidow, L. S., and Warshawsky, D. (1999) Tsix, a gene antisense to Xist at the X-inactivation centre. Nat. Genet. 21, 400-404
-
(1999)
Nat. Genet.
, vol.21
, pp. 400-404
-
-
Lee, J.T.1
Davidow, L.S.2
Warshawsky, D.3
-
84
-
-
0036479009
-
Chromosomal silencing and localization are mediated by different domains of Xist RNA
-
Wutz, A., Rasmussen, T. P., and Jaenisch, R. (2002) Chromosomal silencing and localization are mediated by different domains of Xist RNA. Nat. Genet. 30, 167-174
-
(2002)
Nat. Genet.
, vol.30
, pp. 167-174
-
-
Wutz, A.1
Rasmussen, T.P.2
Jaenisch, R.3
-
85
-
-
79959948197
-
YY1 tethers Xist RNA to the inactive X nucleation center
-
Jeon, Y., and Lee, J. T. (2011) YY1 tethers Xist RNA to the inactive X nucleation center. Cell 146, 119-133
-
(2011)
Cell
, vol.146
, pp. 119-133
-
-
Jeon, Y.1
Lee, J.T.2
-
86
-
-
81855212626
-
Gracefully ageing at 50, X-chromosome inactivation becomes a paradigm for RNA and chromatin control
-
Lee, J. T. (2011) Gracefully ageing at 50, X-chromosome inactivation becomes a paradigm for RNA and chromatin control. Nat. Rev. Mol. Cell Biol. 12, 815-826
-
(2011)
Nat. Rev. Mol. Cell Biol.
, vol.12
, pp. 815-826
-
-
Lee, J.T.1
-
87
-
-
79959952919
-
The inactive X chromosome adopts a unique three-dimensional conformation that is dependent on Xist RNA
-
Splinter, E., de Wit, E., Nora, E. P., Klous, P., van de Werken, H. J., Zhu, Y., Kaaij, L. J., van Ijcken, W., Gribnau, J., Heard, E., and de Laat, W. (2011) The inactive X chromosome adopts a unique three-dimensional conformation that is dependent on Xist RNA. Genes Dev. 25, 1371-1383
-
(2011)
Genes Dev.
, vol.25
, pp. 1371-1383
-
-
Splinter, E.1
De Wit, E.2
Nora, E.P.3
Klous, P.4
Van De Werken, H.J.5
Zhu, Y.6
Kaaij, L.J.7
Van Ijcken, W.8
Gribnau, J.9
Heard, E.10
De Laat, W.11
-
88
-
-
33646598385
-
Elongation of the Kcnq1ot1 transcript is required for genomic imprinting of neighboring genes
-
Mancini-Dinardo, D., Steele, S. J., Levorse, J. M., Ingram, R. S., and Tilghman, S. M. (2006) Elongation of the Kcnq1ot1 transcript is required for genomic imprinting of neighboring genes. Genes Dev. 20, 1268-1282
-
(2006)
Genes Dev.
, vol.20
, pp. 1268-1282
-
-
Mancini-Dinardo, D.1
Steele, S.J.2
Levorse, J.M.3
Ingram, R.S.4
Tilghman, S.M.5
-
89
-
-
34250729138
-
Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
-
Rinn, J. L., Kertesz, M., Wang, J. K., Squazzo, S. L., Xu, X., Brugmann, S. A., Goodnough, L. H., Helms, J. A., Farnham, P. J., Segal, E., and Chang, H. Y. (2007) Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 129, 1311-1323
-
(2007)
Cell
, vol.129
, 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
-
90
-
-
79953748673
-
A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression
-
Wang, K. C., Yang, Y. W., Liu, B., Sanyal, A., Corces-Zimmerman, R., Chen, Y., Lajoie, B. R., Protacio, A., Flynn, R. A., Gupta, R. A., Wysocka, J., Lei, M., Dekker, J., Helms, J. A., and Chang, H. Y. (2011) A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature 472, 120-124
-
(2011)
Nature
, vol.472
, pp. 120-124
-
-
Wang, K.C.1
Yang, Y.W.2
Liu, B.3
Sanyal, A.4
Corces-Zimmerman, R.5
Chen, Y.6
Lajoie, B.R.7
Protacio, A.8
Flynn, R.A.9
Gupta, R.A.10
Wysocka, J.11
Lei, M.12
Dekker, J.13
Helms, J.A.14
Chang, H.Y.15
-
91
-
-
84865757142
-
Landscape of transcription in human cells
-
Djebali, S., Davis, C. A., Merkel, A., Dobin, A., Lassmann, T., Mortazavi, A., Tanzer, A., Lagarde, J., Lin, W., Schlesinger, F., Xue, C., Marinov, G. K., Khatun, J., Williams, B. A., Zaleski, C., Rozowsky, J., Röder, M., Kokocinski, F., Abdelhamid, R. F., Alioto, T., Antoshechkin, I., Baer, M. T., Bar, N. S., Batut, P., Bell, K., Bell, I., Chakrabortty, S., Chen, X., Chrast, J., Curado, J., Derrien, T., Drenkow, J., Dumais, E., Dumais, J., Duttagupta, R., Falconnet, E., Fastuca, M., Fejes-Toth, K., Ferreira, P., Foissac, S., Fullwood, M. J., Gao, H., Gonzalez, D., Gordon, A., Gunawardena, H., Howald, C., Jha, S., Johnson, R., Kapranov, P., King, B., Kingswood, C., Luo, O. J., Park, E., Persaud, K., Preall, J. B., Ribeca, P., Risk, B., Robyr, D., Sammeth, M., Schaffer, L., See, L. H., Shahab, A., Skancke, J., Suzuki, A. M., Takahashi, H., Tilgner, H., Trout, D., Walters, N., Wang, H., Wrobel, J., Yu, Y., Ruan, X., Hayashizaki, Y., Harrow, J., Gerstein, M., Hubbard, T., Reymond, A., Antonarakis, S. E., Hannon, G., Giddings, M. C., Ruan, Y., Wold, B., Carninci, P., Guigo, R., and Gingeras, T. R. (2012) Landscape of transcription in human cells. Nature 489, 101-108
-
(2012)
Nature
, vol.489
, pp. 101-108
-
-
Djebali, S.1
Davis, C.A.2
Merkel, A.3
Dobin, A.4
Lassmann, T.5
Mortazavi, A.6
Tanzer, A.7
Lagarde, J.8
Lin, W.9
Schlesinger, F.10
Xue, C.11
Marinov, G.K.12
Khatun, J.13
Williams, B.A.14
Zaleski, C.15
Rozowsky, J.16
Röder, M.17
Kokocinski, F.18
Abdelhamid, R.F.19
Alioto, T.20
Antoshechkin, I.21
Baer, M.T.22
Bar, N.S.23
Batut, P.24
Bell, K.25
Bell, I.26
Chakrabortty, S.27
Chen, X.28
Chrast, J.29
Curado, J.30
Derrien, T.31
Drenkow, J.32
Dumais, E.33
Dumais, J.34
Duttagupta, R.35
Falconnet, E.36
Fastuca, M.37
Fejes-Toth, K.38
Ferreira, P.39
Foissac, S.40
Fullwood, M.J.41
Gao, H.42
Gonzalez, D.43
Gordon, A.44
Gunawardena, H.45
Howald, C.46
Jha, S.47
Johnson, R.48
Kapranov, P.49
King, B.50
Kingswood, C.51
Luo, O.J.52
Park, E.53
Persaud, K.54
Preall, J.B.55
Ribeca, P.56
Risk, B.57
Robyr, D.58
Sammeth, M.59
Schaffer, L.60
See, L.H.61
Shahab, A.62
Skancke, J.63
Suzuki, A.M.64
Takahashi, H.65
Tilgner, H.66
Trout, D.67
Walters, N.68
Wang, H.69
Wrobel, J.70
Yu, Y.71
Ruan, X.72
Hayashizaki, Y.73
Harrow, J.74
Gerstein, M.75
Hubbard, T.76
Reymond, A.77
Antonarakis, S.E.78
Hannon, G.79
Giddings, M.C.80
Ruan, Y.81
Wold, B.82
Carninci, P.83
Guigo, R.84
Gingeras, T.R.85
more..
-
92
-
-
79955506825
-
Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice
-
Nakagawa, S., Naganuma, T., Shioi, G., and Hirose, T. (2011) Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice. J. Cell Biol. 193, 31-39
-
(2011)
J. Cell Biol.
, vol.193
, pp. 31-39
-
-
Nakagawa, S.1
Naganuma, T.2
Shioi, G.3
Hirose, T.4
-
93
-
-
84864033675
-
Malat1 is not an essential component of nuclear speckles in mice
-
Nakagawa, S., Ip, J. Y., Shioi, G., Tripathi, V., Zong, X., Hirose, T., and Prasanth, K. V. (2012) Malat1 is not an essential component of nuclear speckles in mice. RNA 18, 1487-1499
-
(2012)
RNA
, vol.18
, pp. 1487-1499
-
-
Nakagawa, S.1
Ip, J.Y.2
Shioi, G.3
Tripathi, V.4
Zong, X.5
Hirose, T.6
Prasanth, K.V.7
-
94
-
-
84864315112
-
The lncRNA Malat1 is dispensable for mouse development but its transcription plays a cis-regulatory role in the adult
-
Zhang, B., Arun, G., Mao, Y. S., Lazar, Z., Hung, G., Bhattacharjee, G., Xiao, X., Booth, C. J., Wu, J., Zhang, C., and Spector, D. L. (2012) The lncRNA Malat1 is dispensable for mouse development but its transcription plays a cis-regulatory role in the adult. Cell Rep. 2, 111-123
-
(2012)
Cell Rep.
, vol.2
, pp. 111-123
-
-
Zhang, B.1
Arun, G.2
Mao, Y.S.3
Lazar, Z.4
Hung, G.5
Bhattacharjee, G.6
Xiao, X.7
Booth, C.J.8
Wu, J.9
Zhang, C.10
Spector, D.L.11
-
95
-
-
0031457326
-
Interphase chromosomes undergo constrained diffusional motion in living cells
-
Marshall, W. F., Straight, A., Marko, J. F., Swedlow, J., Dernburg, A., Belmont, A., Murray, A. W., Agard, D. A., and Sedat, J. W. (1997) Interphase chromosomes undergo constrained diffusional motion in living cells. Curr. Biol. 7, 930-939
-
(1997)
Curr. Biol.
, vol.7
, pp. 930-939
-
-
Marshall, W.F.1
Straight, A.2
Marko, J.F.3
Swedlow, J.4
Dernburg, A.5
Belmont, A.6
Murray, A.W.7
Agard, D.A.8
Sedat, J.W.9
-
96
-
-
33646526019
-
Chromosome territories-A functional nuclear landscape
-
Cremer, T., Cremer, M., Dietzel, S., Müller, S., Solovei, I., and Fakan, S. (2006) Chromosome territories-a functional nuclear landscape. Curr. Opin. Cell Biol. 18, 307-316
-
(2006)
Curr. Opin. Cell Biol.
, vol.18
, pp. 307-316
-
-
Cremer, T.1
Cremer, M.2
Dietzel, S.3
Müller, S.4
Solovei, I.5
Fakan, S.6
-
97
-
-
28444496753
-
Chromatin dynamics in interphase cells revealed by tracking in a two-photon excitation microscope
-
Levi, V., Ruan, Q., Plutz, M., Belmont, A. S., and Gratton, E. (2005) Chromatin dynamics in interphase cells revealed by tracking in a two-photon excitation microscope. Biophys. J. 89, 4275-4285
-
(2005)
Biophys. J.
, vol.89
, pp. 4275-4285
-
-
Levi, V.1
Ruan, Q.2
Plutz, M.3
Belmont, A.S.4
Gratton, E.5
-
98
-
-
35549011494
-
Mobility and immobility of chromatin in transcription and genome stability
-
Soutoglou, E., and Misteli, T. (2007) Mobility and immobility of chromatin in transcription and genome stability. Curr. Opin. Genet. Dev. 17, 435-442
-
(2007)
Curr. Opin. Genet. Dev.
, vol.17
, pp. 435-442
-
-
Soutoglou, E.1
Misteli, T.2
|