-
1
-
-
65149092197
-
Transcriptional features of genomic regulatory blocks
-
Akalin A, Fredman D, Arner E, Dong X, Bryne JC, Suzuki H, Daub CO, Hayashizaki Y, Lenhard B. 2009. Transcriptional features of genomic regulatory blocks. Genome Biol 10: R38
-
(2009)
Genome Biol
, vol.10
-
-
Akalin, A.1
Fredman, D.2
Arner, E.3
Dong, X.4
Bryne, J.C.5
Suzuki, H.6
Daub, C.O.7
Hayashizaki, Y.8
Lenhard, B.9
-
2
-
-
77958471357
-
Differential expression analysis for sequence count data
-
Anders S, Huber W. 2010. Differential expression analysis for sequence count data. Genome Biol 11: R106
-
(2010)
Genome Biol
, vol.11
-
-
Anders, S.1
Huber, W.2
-
4
-
-
84870379849
-
Hi-C: A comprehensive technique to capture the conformation of genomes
-
Belton JM, McCord RP, Gibcus JH, Naumova N, Zhan Y, Dekker J. 2012. Hi-C: A comprehensive technique to capture the conformation of genomes. Methods 58: 268-276
-
(2012)
Methods
, vol.58
, pp. 268-276
-
-
Belton, J.M.1
McCord, R.P.2
Gibcus, J.H.3
Naumova, N.4
Zhan, Y.5
Dekker, J.6
-
5
-
-
60149095014
-
Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains
-
Cuddapah S, Jothi R, Schones DE, Roh TY, Cui K, Zhao K. 2009. Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains. Genome Res 19: 24-32
-
(2009)
Genome Res
, vol.19
, pp. 24-32
-
-
Cuddapah, S.1
Jothi, R.2
Schones, D.E.3
Roh, T.Y.4
Cui, K.5
Zhao, K.6
-
6
-
-
84884134904
-
The pluripotent genome in three dimensions is shaped around pluripotency factors
-
de Wit E, Bouwman BAM, Zhu Y, Klous P, Splinter E, Verstegen MJAM, Krijger PHL, Festuccia N, Nora EP,Welling M, et al. 2013. The pluripotent genome in three dimensions is shaped around pluripotency factors. Nature 501: 227-231
-
(2013)
Nature
, vol.501
, pp. 227-231
-
-
De Wit, E.1
Bouwman, B.A.M.2
Zhu, Y.3
Klous, P.4
Splinter, E.5
Verstegen, M.J.A.M.6
Krijger, P.H.L.7
Festuccia, N.8
Nora, E.P.9
Welling, M.10
-
7
-
-
84876541696
-
UCNEbase-A database of ultraconserved noncoding elements and genomic regulatory blocks
-
Dimitrieva S, Bucher P. 2013. UCNEbase-a database of ultraconserved noncoding elements and genomic regulatory blocks. Nucleic Acids Res 41: D101-D109
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Dimitrieva, S.1
Bucher, P.2
-
8
-
-
84861095603
-
Topological domains in mammalian genomes identified by analysis of chromatin interactions
-
Dixon JR, Selvaraj S, Yue F, Kim A, Li Y, Shen Y, Hu M, Liu JS, 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
-
9
-
-
84879208137
-
Cohesin at active genes: A unifying theme for cohesin and gene expression from model organisms to humans
-
Dorsett D, Merkenschlager M. 2013. Cohesin at active genes: A unifying theme for cohesin and gene expression from model organisms to humans. Curr Opin Cell Biol 25: 327-333
-
(2013)
Curr Opin Cell Biol
, vol.25
, pp. 327-333
-
-
Dorsett, D.1
Merkenschlager, M.2
-
10
-
-
84868325694
-
Cohesin regulates tissue-Specific expression by stabilizing highly occupied cis-Regulatory modules
-
Faure AJ, Schmidt D, Watt S, Schwalie PC, Wilson MD, Xu H, Ramsay RG, Odom DT, Flicek P. 2012. Cohesin regulates tissue-specific expression by stabilizing highly occupied cis-regulatory modules. Genome Res 22: 2163-2175
-
(2012)
Genome Res
, vol.22
, pp. 2163-2175
-
-
Faure, A.J.1
Schmidt, D.2
Watt, S.3
Schwalie, P.C.4
Wilson, M.D.5
Xu, H.6
Ramsay, R.G.7
Odom, D.T.8
Flicek, P.9
-
11
-
-
84875391572
-
Ensembl 2013
-
Flicek P, Ahmed I, Amode MR, Barrell D, Beal K, Brent S, Carvalho-Silva D, Clapham P, Coates G, Fairley S, et al. 2013. Ensembl 2013. Nucleic Acids Res 41: D48-D55
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Flicek, P.1
Ahmed, I.2
Amode, M.R.3
Barrell, D.4
Beal, K.5
Brent, S.6
Carvalho-Silva, D.7
Clapham, P.8
Coates, G.9
Fairley, S.10
-
12
-
-
34249307315
-
Nuclear organization of the genome and the potential for gene regulation
-
Fraser P, Bickmore W. 2007. Nuclear organization of the genome and the potential for gene regulation. Nature 447: 413-417
-
(2007)
Nature
, vol.447
, pp. 413-417
-
-
Fraser, P.1
Bickmore, W.2
-
13
-
-
84860381688
-
Higher-Order chromatin structure: Bridging physics and biology
-
Fudenberg G, Mirny LA. 2012. Higher-order chromatin structure: Bridging physics and biology. Curr Opin Genet Dev 22: 115-124
-
(2012)
Curr Opin Genet Dev
, vol.22
, pp. 115-124
-
-
Fudenberg, G.1
Mirny, L.A.2
-
14
-
-
78049391383
-
Dosage-Sensitive regulation of cohesin chromosome binding and dynamics by Nipped-B, Pds5, and Wapl
-
Gause M, Misulovin Z, Bilyeu A, Dorsett D. 2010. Dosage-sensitive regulation of cohesin chromosome binding and dynamics by Nipped-B, Pds5, and Wapl. Mol Cell Biol 30: 4940-4951
-
(2010)
Mol Cell Biol
, vol.30
, pp. 4940-4951
-
-
Gause, M.1
Misulovin, Z.2
Bilyeu, A.3
Dorsett, D.4
-
15
-
-
33746486793
-
Live-Cell imaging reveals a stable cohesin-Chromatin interaction after but not before DNA replication
-
Gerlich D, Koch B, Dupeux F, Peters JM, Ellenberg J. 2006. Live-cell imaging reveals a stable cohesin-chromatin interaction after but not before DNA replication. Curr Biol 16: 1571-1578
-
(2006)
Curr Biol
, vol.16
, pp. 1571-1578
-
-
Gerlich, D.1
Koch, B.2
Dupeux, F.3
Peters, J.M.4
Ellenberg, J.5
-
16
-
-
84876838711
-
The hierarchy of the 3D genome
-
Gibcus JH, Dekker J. 2013. The hierarchy of the 3D genome. Mol Cell 49: 773-782
-
(2013)
Mol Cell
, vol.49
, pp. 773-782
-
-
Gibcus, J.H.1
Dekker, J.2
-
17
-
-
45149084413
-
Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
-
Guelen L, Pagie L, Brasset E, MeulemanW, Faza MB, TalhoutW, Eussen BH, de Klein A, Wessels L, de Laat W, et al. 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
-
18
-
-
80053130223
-
CTCF-Binding elements mediate control of V(D)J recombination
-
Guo C, Yoon HS, Franklin A, Jain S, Ebert A, Cheng HL, Hansen E, Despo O, Bossen C, Vettermann C, et al. 2011. CTCF-binding elements mediate control of V(D)J recombination. Nature 477: 424-430
-
(2011)
Nature
, vol.477
, pp. 424-430
-
-
Guo, C.1
Yoon, H.S.2
Franklin, A.3
Jain, S.4
Ebert, A.5
Cheng, H.L.6
Hansen, E.7
Despo, O.8
Bossen, C.9
Vettermann, C.10
-
19
-
-
67650997080
-
Cohesins form chromosomal cisinteractions at the developmentally regulated IFNG locus
-
Hadjur S,Williams LM, Ryan NK, Cobb BS, Sexton T, Fraser P, Fisher AG, Merkenschlager M. 2009. Cohesins form chromosomal cisinteractions at the developmentally regulated IFNG locus. Nature 460: 410-413
-
(2009)
Nature
, vol.460
, pp. 410-413
-
-
Hadjur, S.1
Williams, L.M.2
Ryan, N.K.3
Cobb, B.S.4
Sexton, T.5
Fraser, P.6
Fisher, A.G.7
Merkenschlager, M.8
-
20
-
-
77952567987
-
Simple combinations of lineage-Determining transcription factors prime cis-Regulatory elements required for macrophage and B cell identities
-
Heinz S, Benner C, Spann N, Bertolino E, Lin YC, Laslo P, Cheng JX, Murre C, Singh H, Glass CK. 2010. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol Cell 38: 576-589
-
(2010)
Mol Cell
, vol.38
, pp. 576-589
-
-
Heinz, S.1
Benner, C.2
Spann, N.3
Bertolino, E.4
Lin, Y.C.5
Laslo, P.6
Cheng, J.X.7
Murre, C.8
Singh, H.9
Glass, C.K.10
-
21
-
-
45549093494
-
Promoter elements associated with RNA Pol 2 stalling in the drosophila embryo
-
Hendrix DA, Hong J-W, Zeitlinger J, Rokhsar DS, Levine MS. 2008. Promoter elements associated with RNA Pol 2 stalling in the Drosophila embryo. Proc Natl Acad Sci 105: 7762-7767
-
(2008)
Proc Natl Acad Sci
, vol.105
, pp. 7762-7767
-
-
Hendrix, D.A.1
Hong, J.-W.2
Zeitlinger, J.3
Rokhsar, D.S.4
Levine, M.S.5
-
22
-
-
78049419464
-
Orphan CpG islands identify numerous conserved promoters in the mammalian genome
-
Illingworth RS, Gruenewald-Schneider U, Webb S, Kerr ARW, James KD, Turner DJ, James KD, Turner DJ, Smith C, Harrison DJ, et al. 2010. Orphan CpG islands identify numerous conserved promoters in the mammalian genome. PLoS Genet 6: e1001134
-
(2010)
PLoS Genet
, vol.6
-
-
Illingworth, R.S.1
Gruenewald-Schneider, U.2
Webb, S.3
Kerr, A.R.W.4
James, K.D.5
Turner, D.J.6
James, K.D.7
Turner, D.J.8
Smith, C.9
Harrison, D.J.10
-
23
-
-
84866997011
-
Iterative correction of Hi-C data reveals hallmarks of chromosome organization
-
Imakaev M, Fudenberg G, McCord RP, Naumova N, Goloborodko A, Lajoie BR, Dekker J, Mirny LA. 2012. Iterative correction of Hi-C data reveals hallmarks of chromosome organization. Nat Methods 9: 999-1003
-
(2012)
Nat Methods
, vol.9
, pp. 999-1003
-
-
Imakaev, M.1
Fudenberg, G.2
McCord, R.P.3
Naumova, N.4
Goloborodko, A.5
Lajoie, B.R.6
Dekker, J.7
Mirny, L.A.8
-
24
-
-
84861858793
-
Age-Related aneuploidy through cohesion exhaustion
-
Jessberger R. 2012. Age-related aneuploidy through cohesion exhaustion. EMBO Rep 13: 539-546
-
(2012)
EMBO Rep
, vol.13
, pp. 539-546
-
-
Jessberger, R.1
-
25
-
-
77957139539
-
Mediator and cohesin connect gene expression and chromatin architecture
-
Kagey MH, Newman JJ, Bilodeau S, Zhan Y, Orlando DA, van Berkum NL, Ebmeier CC, Goossens J, Rahl PB, Levine SS, et al. 2010. Mediator and cohesin connect gene expression and chromatin architecture. Nature 467: 430-435
-
(2010)
Nature
, vol.467
, pp. 430-435
-
-
Kagey, M.H.1
Newman, J.J.2
Bilodeau, S.3
Zhan, Y.4
Orlando, D.A.5
Van Berkum, N.L.6
Ebmeier, C.C.7
Goossens, J.8
Rahl, P.B.9
Levine, S.S.10
-
26
-
-
70349690201
-
+/- mouse, a model of cornelia de lange syndrome
-
+/- mouse, a model of Cornelia de Lange Syndrome. PLoS Genet 5: e1000650
-
(2009)
PLoS Genet
, vol.5
-
-
Kawauchi, S.1
Calof, A.L.2
Santos, R.3
Lopez-Burks, M.E.4
Young, C.M.5
Hoang, M.P.6
Chua, A.7
Lao, T.8
Lechner, M.S.9
Daniel, J.A.10
-
27
-
-
69649109364
-
Circos: An information aesthetic for comparative genomics
-
Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. 2009. Circos: An information aesthetic for comparative genomics. Genome Res 19: 1639-1645
-
(2009)
Genome Res
, vol.19
, pp. 1639-1645
-
-
Krzywinski, M.1
Schein, J.2
Birol, I.3
Connors, J.4
Gascoyne, R.5
Horsman, D.6
Jones, S.J.7
Marra, M.A.8
-
28
-
-
33751237384
-
Wapl controls the dynamic association of cohesin with chromatin
-
Kueng S, Hegemann B, Peters BH, Lipp JJ, Schleiffer A, Mechtler K, Peters JM. 2006. Wapl controls the dynamic association of cohesin with chromatin. Cell 127: 955-967
-
(2006)
Cell
, vol.127
, pp. 955-967
-
-
Kueng, S.1
Hegemann, B.2
Peters, B.H.3
Lipp, J.J.4
Schleiffer, A.5
Mechtler, K.6
Peters, J.M.7
-
29
-
-
62349130698
-
Ultrafast and memory-Efficient alignment of short DNA sequences to the human genome
-
Langmead B, Trapnell C, Pop M. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25
-
(2009)
Genome Biol
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
-
30
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li H, Durbin R. 2009. Fast and accurate short read alignment with Burrows- Wheeler transform. Bioinformatics 25: 1754-1760
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
31
-
-
70349873824
-
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
-
Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO, et al. 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
-
32
-
-
84869502375
-
Global changes in the nuclear positioning of genes and intra- and interdomain genomic interactions that orchestrate B cell fate
-
Lin YC, Benner C, Mansson R, Heinz S, Miyazaki K, Miyazaki M, Chandra V, Bossen C, Glass CK, Murre C. 2012. Global changes in the nuclear positioning of genes and intra- and interdomain genomic interactions that orchestrate B cell fate. Nat Immunol 13: 1196-1204
-
(2012)
Nat Immunol
, vol.13
, pp. 1196-1204
-
-
Lin, Y.C.1
Benner, C.2
Mansson, R.3
Heinz, S.4
Miyazaki, K.5
Miyazaki, M.6
Chandra, V.7
Bossen, C.8
Glass, C.K.9
Murre, C.10
-
33
-
-
2942565680
-
Both CTCF-Dependent and-Independent insulators are found between the mouse T cell receptor α and dad1 genes
-
Magdinier F, Yusufzai TM, Felsenfeld G. 2004. Both CTCF-dependent and -independent insulators are found between the mouse T cell receptor α and Dad1 genes. J Biol Chem 279: 25381-25389
-
(2004)
J Biol Chem
, vol.279
, pp. 25381-25389
-
-
Magdinier, F.1
Yusufzai, T.M.2
Felsenfeld, G.3
-
34
-
-
84873349707
-
Correlated alterations in genome organization, histone methylation, and DNA-Lamin A/C interactions in Hutchinson-Gilford progeria syndrome
-
McCord RP, Nazario-Toole A, Zhang H, Chines PS, Zhan Y, Erdos MR, Collins FS, Dekker J, Cao K. 2013. Correlated alterations in genome organization, histone methylation, and DNA-lamin A/C interactions in Hutchinson-Gilford progeria syndrome. Genome Res 23: 260-269
-
(2013)
Genome Res
, vol.23
, pp. 260-269
-
-
McCord, R.P.1
Nazario-Toole, A.2
Zhang, H.3
Chines, P.S.4
Zhan, Y.5
Erdos, M.R.6
Collins, F.S.7
Dekker, J.8
Cao, K.9
-
35
-
-
63049136577
-
Intersection of ChIP and FLIP, genomic methods to study the dynamics of the cohesin proteins
-
McNairn AJ, Gerton JL. 2009. Intersection of ChIP and FLIP, genomic methods to study the dynamics of the cohesin proteins. Chromosome Res 17: 155-163
-
(2009)
Chromosome Res
, vol.17
, pp. 155-163
-
-
McNairn, A.J.1
Gerton, J.L.2
-
36
-
-
84875127327
-
CTCF and cohesin: Linking gene regulatory elements with their targets
-
Merkenschlager M, Odom DT. 2013. CTCF and cohesin: Linking gene regulatory elements with their targets. Cell 152: 1285-1297
-
(2013)
Cell
, vol.152
, pp. 1285-1297
-
-
Merkenschlager, M.1
Odom, D.T.2
-
37
-
-
84873375779
-
Constitutive nuclear lamina-Genome interactions are highly conserved and associated with A/T-Rich sequence
-
Meuleman W, Peric-Hupkes D, Kind J, Beaudry JB, Pagie L, Kellis M, Reinders M, Wessels L, van Steensel B. 2013. Constitutive nuclear lamina-genome interactions are highly conserved and associated with A/T-rich sequence. Genome Res 23: 270-280
-
(2013)
Genome Res
, vol.23
, pp. 270-280
-
-
Meuleman, W.1
Peric-Hupkes, D.2
Kind, J.3
Beaudry, J.B.4
Pagie, L.5
Kellis, M.6
Reinders, M.7
Wessels, L.8
Van Steensel, B.9
-
38
-
-
38349177548
-
Association of cohesin and Nipped-B with transcriptionally active regions of the drosophila melanogaster genome
-
Misulovin Z, Schwartz YB, Li XY, Kahn TG, Gause M, MacArthur S, Fay JC, Eisen MB, Pirrotta V, Biggin MD, et al. 2008. Association of cohesin and Nipped-B with transcriptionally active regions of the Drosophila melanogaster genome. Chromosoma 117: 89-102
-
(2008)
Chromosoma
, vol.117
, pp. 89-102
-
-
Misulovin, Z.1
Schwartz, Y.B.2
Li, X.Y.3
Kahn, T.G.4
Gause, M.5
MacArthur, S.6
Fay, J.C.7
Eisen, M.B.8
Pirrotta, V.9
Biggin, M.D.10
-
39
-
-
84862755561
-
Landscapes and archipelagos: Spatial organization of gene regulation in vertebrates
-
Montavon T, Duboule D. 2012. Landscapes and archipelagos: Spatial organization of gene regulation in vertebrates. Trends Cell Biol 22: 347-354
-
(2012)
Trends Cell Biol
, vol.22
, pp. 347-354
-
-
Montavon, T.1
Duboule, D.2
-
40
-
-
73349127026
-
Cohesin: Its roles andmechanisms
-
Nasmyth K, Haering CH. 2009. Cohesin: Its roles andmechanisms. Annu Rev Genet 43: 525-558
-
(2009)
Annu Rev Genet
, vol.43
, pp. 525-558
-
-
Nasmyth, K.1
Haering, C.H.2
-
41
-
-
84861100147
-
Spatial partitioning of the regulatory landscape of the X-Inactivation centre
-
Nora EP, Lajoie BR, Schulz EG, Giorgetti L, Okamoto I, Servant N, Piolot T, van Berkum NL, Meisig J, Sedat J, et al. 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
-
42
-
-
79961052054
-
In vitro assembly of physiological cohesin/DNA complexes
-
Onn I, Koshland D. 2011. In vitro assembly of physiological cohesin/DNA complexes. Proc Natl Acad Sci 108: 12198-12205
-
(2011)
Proc Natl Acad Sci
, vol.108
, pp. 12198-12205
-
-
Onn, I.1
Koshland, D.2
-
43
-
-
38849121606
-
Cohesins functionally associate with CTCF on mammalian chromosome arms
-
Parelho V, Hadjur S, Spivakov M, Leleu M, Sauer S, Gregson HC, Jarmuz A, Canzonetta C,Webster Z, Nesterova T, et al. 2008. Cohesins functionally associate with CTCF on mammalian chromosome arms. Cell 132: 422-433
-
(2008)
Cell
, vol.132
, pp. 422-433
-
-
Parelho, V.1
Hadjur, S.2
Spivakov, M.3
Leleu, M.4
Sauer, S.5
Gregson, H.C.6
Jarmuz, A.7
Canzonetta, C.8
Webster, Z.9
Nesterova, T.10
-
44
-
-
67549119096
-
CTCF: Master weaver of the genome
-
Phillips JE, Corces VG. 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
-
45
-
-
84878860751
-
Architectural protein subclasses shape 3D organization of genomes during lineage commitment
-
Phillips-Cremins JE, Sauria ME, Sanyal A, Gerasimova TI, Lajoie BR, Bell JS, Ong CT, Hookway TA, Guo C, Sun Y, et al. 2013. Architectural protein subclasses shape 3D organization of genomes during lineage commitment. Cell 153: 1281-1295
-
(2013)
Cell
, vol.153
, pp. 1281-1295
-
-
Phillips-Cremins, J.E.1
Sauria, M.E.2
Sanyal, A.3
Gerasimova, T.I.4
Lajoie, B.R.5
Bell, J.S.6
Ong, C.T.7
Hookway, T.A.8
Guo, C.9
Sun, Y.10
-
46
-
-
80755180849
-
The DNA-Binding protein CTCF limits proximal vκ recombination and restricts κ enhancer interactions to the immunoglobulin κ light chain locus
-
Ribeiro de Almeida C, Stadhouders R, De Bruijn MJ, Bergen IM, Thongjuea S, Lenhard B, van Ijcken W, Grosveld F, Galjart N, Soler E, et al. 2011. The DNA-binding protein CTCF limits proximal Vκ recombination and restricts κ enhancer interactions to the immunoglobulin κ light chain locus. Immunity 35: 501-513
-
(2011)
Immunity
, vol.35
, pp. 501-513
-
-
Ribeiro De Almeida, C.1
Stadhouders, R.2
De Bruijn, M.J.3
Bergen, I.M.4
Thongjuea, S.5
Lenhard, B.6
Van Ijcken, W.7
Grosveld, F.8
Galjart, N.9
Soler, E.10
-
47
-
-
46149113242
-
CTCF physically links cohesin to chromatin
-
Rubio ED, Reiss DJ, Welcsh PL, Disteche CM, Filippova GN, Baliga NS, Aebersold R, Ranish JA, Krumm A. 2008. CTCF physically links cohesin to chromatin. Proc Natl Acad Sci 105: 8309-8314
-
(2008)
Proc Natl Acad Sci
, vol.105
, pp. 8309-8314
-
-
Rubio, E.D.1
Reiss, D.J.2
Welcsh, P.L.3
Disteche, C.M.4
Filippova, G.N.5
Baliga, N.S.6
Aebersold, R.7
Ranish, J.A.8
Krumm, A.9
-
48
-
-
67650529804
-
Regulation of the Drosophila enhancer of split and invected-Engrailed gene complexes by sister chromatid cohesion proteins
-
Schaaf CA, Misulovin Z, Sahota G, Siddiqui AM, Schwartz YB, Kahn TG, Pirrotta V, Gause M, Dorsett D. 2009. Regulation of the Drosophila enhancer of split and invected-engrailed gene complexes by sister chromatid cohesion proteins. PLoS ONE 4: e6202
-
(2009)
PLoS ONE
, vol.4
-
-
Schaaf, C.A.1
Misulovin, Z.2
Sahota, G.3
Siddiqui, A.M.4
Schwartz, Y.B.5
Kahn, T.G.6
Pirrotta, V.7
Gause, M.8
Dorsett, D.9
-
49
-
-
77951836691
-
A CTCF-Independent role for cohesin in tissuespecific transcription
-
Schmidt D, Schwalie PC, Ross-Innes CS, Hurtado A, Brown GD, Carroll JS, Flicek P, Odom DT. 2010. A CTCF-independent role for cohesin in tissuespecific transcription. Genome Res 20: 578-588
-
(2010)
Genome Res
, vol.20
, pp. 578-588
-
-
Schmidt, D.1
Schwalie, P.C.2
Ross-Innes, C.S.3
Hurtado, A.4
Brown, G.D.5
Carroll, J.S.6
Flicek, P.7
Odom, D.T.8
-
50
-
-
80052042965
-
A role for cohesin in T-Cell-Receptor rearrangement and thymocyte differentiation
-
Seitan VC, Hao B, Tachibana-Konwalski K, Lavagnolli T, Mira-Bontenbal H, Brown KE, Teng G, Carroll T, Terry A, Horan K, et al. 2011. A role for cohesin in T-cell-receptor rearrangement and thymocyte differentiation. Nature 476: 467-471
-
(2011)
Nature
, vol.476
, pp. 467-471
-
-
Seitan, V.C.1
Hao, B.2
Tachibana-Konwalski, K.3
Lavagnolli, T.4
Mira-Bontenbal, H.5
Brown, K.E.6
Teng, G.7
Carroll, T.8
Terry, A.9
Horan, K.10
-
51
-
-
84864462544
-
A map of the cis-Regulatory sequences in the mouse genome
-
Shen Y, Yue F, McCleary DF, Ye Z, Edsall L, Kuan S,Wagner U, Dixon J, Lee L, Lobanenkov VV, et al. 2012. A map of the cis-regulatory sequences in the mouse genome. Nature 488: 116-120
-
(2012)
Nature
, vol.488
, pp. 116-120
-
-
Shen, Y.1
Yue, F.2
McCleary, D.F.3
Ye, Z.4
Edsall, L.5
Kuan, S.6
Wagner, U.7
Dixon, J.8
Lee, L.9
Lobanenkov, V.V.10
-
52
-
-
84874438729
-
Tcra gene recombination is supported by a Tcra enhancer-and CTCF-Dependent chromatin hub
-
Shih HY, Verma-Gaur J, Torkamani A, Feeney AJ, Galjart N, Krangel MS. 2012. Tcra gene recombination is supported by a Tcra enhancer- and CTCF-dependent chromatin hub. Proc Natl Acad Sci 109: E3493-E3502
-
(2012)
Proc Natl Acad Sci
, vol.109
-
-
Shih, H.Y.1
Verma-Gaur, J.2
Torkamani, A.3
Feeney, A.J.4
Galjart, N.5
Krangel, M.S.6
-
53
-
-
39449111307
-
Cohesins localize with CTCF at the KSHV latency control region and at cellular c-Myc and H19/Igf2 insulators
-
Stedman W, Kang H, Lin S, Kissil JL, Bartolomei MS, Lieberman PM. 2008. Cohesins localize with CTCF at the KSHV latency control region and at cellular c-myc and H19/Igf2 insulators. EMBO J 27: 654-666
-
(2008)
EMBO J
, vol.27
, pp. 654-666
-
-
Stedman, W.1
Kang, H.2
Lin, S.3
Kissil, J.L.4
Bartolomei, M.S.5
Lieberman, P.M.6
-
54
-
-
19444365725
-
Cornelia de Lange syndrome and the link between chromosomal function, DNA repair and developmental gene regulation
-
Strachan T. 2005. Cornelia de Lange syndrome and the link between chromosomal function, DNA repair and developmental gene regulation. Curr Opin Genet Dev 15: 258-264
-
(2005)
Curr Opin Genet Dev
, vol.15
, pp. 258-264
-
-
Strachan, T.1
-
55
-
-
84885592677
-
Wapl is an essential regulator of chromatin structure and chromosome segregation
-
Tedeschi A, Wutz G, Huet S, Jaritz M, Wuensche A, Schirghuber E, Davidson IF, Tang W, Cisneros DA, Bhaskara V, et al. 2013. Wapl is an essential regulator of chromatin structure and chromosome segregation. Nature 501: 564-568
-
(2013)
Nature
, vol.501
, pp. 564-568
-
-
Tedeschi, A.1
Wutz, G.2
Huet, S.3
Jaritz, M.4
Wuensche, A.5
Schirghuber, E.6
Davidson, I.F.7
Tang, W.8
Cisneros, D.A.9
Bhaskara, V.10
-
56
-
-
79751531332
-
Haplotype and isoform specific expression estimation using multimapping RNA-Seq reads
-
urro E, Su S-Y, Goncxalves  , Coin LJ, Richardson S, Lewin A. 2011. Haplotype and isoform specific expression estimation using multimapping RNA-seq reads. Genome Biol 12: R13
-
(2011)
Genome Biol
, vol.12
-
-
Turro, E.1
Su, S.-Y.2
Goncxalves, Â.3
Coin, L.J.4
Richardson, S.5
Lewin, A.6
-
57
-
-
79956064734
-
Chromatin: Constructing the big picture
-
van Steensel B. 2011. Chromatin: Constructing the big picture. EMBO J 30: 1885-1895
-
(2011)
EMBO J
, vol.30
, pp. 1885-1895
-
-
Van Steensel, B.1
-
59
-
-
35548990188
-
We gather together: Insulators and genome organization
-
Wallace JA, Felsenfeld G. 2007. We gather together: Insulators and genome organization. Curr Opin Genet Dev 17: 400-407
-
(2007)
Curr Opin Genet Dev
, vol.17
, pp. 400-407
-
-
Wallace, J.A.1
Felsenfeld, G.2
-
60
-
-
39149121436
-
Cohesin mediates transcriptional insulation by CCCTC-Binding factor
-
Wendt KS, Yoshida K, Itoh T, Bando M, Koch B, Schirghuber E, Tsutsumi S, Nagae G, Ishihara K, Mishiro T, et al. 2008. Cohesin mediates transcriptional insulation by CCCTC-binding factor. Nature 451: 796-801
-
(2008)
Nature
, vol.451
, pp. 796-801
-
-
Wendt, K.S.1
Yoshida, K.2
Itoh, T.3
Bando, M.4
Koch, B.5
Schirghuber, E.6
Tsutsumi, S.7
Nagae, G.8
Ishihara, K.9
Mishiro, T.10
-
61
-
-
77952857912
-
A signalnoise model for significance analysis of ChIP-Seq with negative control
-
Xu H, Handoko L,Wei X, Ye C, Sheng J,Wei C-L, Sung WK. 2010. A signalnoise model for significance analysis of ChIP-seq with negative control. Bioinformatics 26: 1199-1204
-
(2010)
Bioinformatics
, vol.26
, pp. 1199-1204
-
-
Xu, H.1
Handoko, L.2
Wei, X.3
Ye, C.4
Sheng, J.5
Wei, C.-L.6
Sung, W.K.7
-
62
-
-
84859157183
-
Dynamic transformations of genome-Wide epigenetic marking and transcriptional control establish T cell identity
-
Zhang JA, Mortazavi A, Williams BA, Wold BJ, Rothenberg EV. 2012. Dynamic transformations of genome-wide epigenetic marking and transcriptional control establish T cell identity. Cell 149: 467-482
-
(2012)
Cell
, vol.149
, pp. 467-482
-
-
Zhang, J.A.1
Mortazavi, A.2
Williams, B.A.3
Wold, B.J.4
Rothenberg, E.V.5
-
63
-
-
0033168631
-
Enhancer-Blocking activity within the DNAse 1 hypersensitivity site 2 to 6 region between the TCR α and Dad1 genes
-
Zhong XP, Krangel MS. 1999. Enhancer-blocking activity within the DNAse 1 hypersensitivity site 2 to 6 region between the TCR α and Dad1 genes. J Immunol 163: 295-300
-
(1999)
J Immunol
, vol.163
, pp. 295-300
-
-
Zhong, X.P.1
Krangel, M.S.2
|