메뉴 건너뛰기




Volumn 23, Issue 12, 2013, Pages 2066-2077

Cohesin-Based chromatin interactions enable regulated gene expression within preexisting architectural compartments

Author keywords

[No Author keywords available]

Indexed keywords

COHESIN;

EID: 84890504911     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.161620.113     Document Type: Article
Times cited : (254)

References (63)
  • 2
    • 77958471357 scopus 로고    scopus 로고
    • 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
  • 5
    • 60149095014 scopus 로고    scopus 로고
    • 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
  • 7
    • 84876541696 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 12
    • 34249307315 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 20
    • 77952567987 scopus 로고    scopus 로고
    • 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
  • 24
    • 84861858793 scopus 로고    scopus 로고
    • 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
  • 29
    • 62349130698 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 33
    • 2942565680 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 39
    • 84862755561 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 42
    • 79961052054 scopus 로고    scopus 로고
    • 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
  • 44
    • 67549119096 scopus 로고    scopus 로고
    • 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
  • 53
    • 39449111307 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 57
    • 79956064734 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 61
    • 77952857912 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.