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Volumn 9, Issue 3, 2013, Pages

Genome-Wide Control of RNA Polymerase II Activity by Cohesin

Author keywords

[No Author keywords available]

Indexed keywords

COHESIN; MESSENGER RNA; RNA POLYMERASE II;

EID: 84876010302     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1003382     Document Type: Article
Times cited : (88)

References (51)
  • 1
    • 79953162010 scopus 로고    scopus 로고
    • Cohesin: genomic insights into controlling gene transcription and development
    • Dorsett D, (2011) Cohesin: genomic insights into controlling gene transcription and development. Curr Opin Genet Dev 21: 199-206.
    • (2011) Curr Opin Genet Dev , vol.21 , pp. 199-206
    • Dorsett, D.1
  • 2
    • 84859619817 scopus 로고    scopus 로고
    • The ancient and evolving roles of cohesin in gene expression and DNA repair
    • Dorsett D, Ström L, (2012) The ancient and evolving roles of cohesin in gene expression and DNA repair. Curr Biol 22: R240-250.
    • (2012) Curr Biol , vol.22
    • Dorsett, D.1    Ström, L.2
  • 3
    • 73349127026 scopus 로고    scopus 로고
    • Cohesin: its roles and mechanisms
    • Nasmyth K, Haering CH, (2009) Cohesin: its roles and mechanisms. Annu Rev Genet 43: 525-558.
    • (2009) Annu Rev Genet , vol.43 , pp. 525-558
    • Nasmyth, K.1    Haering, C.H.2
  • 4
    • 58149158042 scopus 로고    scopus 로고
    • On the molecular etiology of Cornelia de Lange syndrome
    • Dorsett D, Krantz ID, (2009) On the molecular etiology of Cornelia de Lange syndrome. Ann N Y Acad Sci 1151: 22-37.
    • (2009) Ann N Y Acad Sci , vol.1151 , pp. 22-37
    • Dorsett, D.1    Krantz, I.D.2
  • 5
    • 78049277571 scopus 로고    scopus 로고
    • A direct role for cohesin in gene regulation and ecdysone response in Drosophila salivary glands
    • Pauli A, van Bemmel JG, Oliveira RA, Itoh T, Shirahige K, et al. (2010) A direct role for cohesin in gene regulation and ecdysone response in Drosophila salivary glands. Curr Biol 20: 1787-1798.
    • (2010) Curr Biol , vol.20 , pp. 1787-1798
    • Pauli, A.1    van Bemmel, J.G.2    Oliveira, R.A.3    Itoh, T.4    Shirahige, K.5
  • 7
    • 77957139539 scopus 로고    scopus 로고
    • Mediator and cohesin connect gene expression and chromatin architecture
    • Kagey MH, Newman JJ, Bilodeau S, Zhan Y, Orlando DA, 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
  • 8
    • 66249144416 scopus 로고    scopus 로고
    • Transcriptional dysregulation in NIPBL and cohesin mutant human cells
    • doi:10.1371/journal.pbio.1000119
    • Liu J, Zhang Z, Bando M, Itoh T, Deardorff MA, et al. (2009) Transcriptional dysregulation in NIPBL and cohesin mutant human cells. PLoS Biol 7: e1000119 doi:10.1371/journal.pbio.1000119.
    • (2009) PLoS Biol , vol.7
    • Liu, J.1    Zhang, Z.2    Bando, M.3    Itoh, T.4    Deardorff, M.A.5
  • 9
    • 38349177548 scopus 로고    scopus 로고
    • 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, 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
  • 10
    • 38849121606 scopus 로고    scopus 로고
    • Cohesins functionally associate with CTCF on mammalian chromosome arms
    • Parelho V, Hadjur S, Spivakov M, Leleu M, Sauer S, 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
  • 12
    • 80053985777 scopus 로고    scopus 로고
    • Cohesin selectively binds and regulates genes with paused RNA polymerase
    • Fay A, Misulovin Z, Li J, Schaaf CA, Gause M, et al. (2011) Cohesin selectively binds and regulates genes with paused RNA polymerase. Curr Biol 21: 1624-1634.
    • (2011) Curr Biol , vol.21 , pp. 1624-1634
    • Fay, A.1    Misulovin, Z.2    Li, J.3    Schaaf, C.A.4    Gause, M.5
  • 13
    • 67650529804 scopus 로고    scopus 로고
    • Regulation of the Drosophila Enhancer of split and invected-engrailed gene complexes by sister chromatid cohesion proteins
    • doi:10.1371/journal.pone.0006202
    • Schaaf CA, Misulovin Z, Sahota G, Siddiqui AM, Schwartz YB, et al. (2009) Regulation of the Drosophila Enhancer of split and invected-engrailed gene complexes by sister chromatid cohesion proteins. PLoS ONE 4: e6202 doi:10.1371/journal.pone.0006202.
    • (2009) PLoS ONE , vol.4
    • Schaaf, C.A.1    Misulovin, Z.2    Sahota, G.3    Siddiqui, A.M.4    Schwartz, Y.B.5
  • 15
    • 84874175008 scopus 로고    scopus 로고
    • Precise maps of RNA polymerase reveal how promoters direct initiation and pausing
    • Kwak H, Fuda NJ, Core LJ, Lis JT, (2013) Precise maps of RNA polymerase reveal how promoters direct initiation and pausing. Science in press.
    • (2013) Science
    • Kwak, H.1    Fuda, N.J.2    Core, L.J.3    Lis, J.T.4
  • 16
    • 41349094797 scopus 로고    scopus 로고
    • Transcription regulation through promoter-proximal pausing of RNA polymerase II
    • Core LJ, Lis JT, (2008) Transcription regulation through promoter-proximal pausing of RNA polymerase II. Science 319: 1791-1792.
    • (2008) Science , vol.319 , pp. 1791-1792
    • Core, L.J.1    Lis, J.T.2
  • 18
    • 67849122301 scopus 로고    scopus 로고
    • Using ChIP-chip and ChIP-seq to study the regulation of gene expression: genome-wide localization studies reveal widespread regulation of transcription elongation
    • Gilchrist DA, Fargo DC, Adelman K, (2009) Using ChIP-chip and ChIP-seq to study the regulation of gene expression: genome-wide localization studies reveal widespread regulation of transcription elongation. Methods 48: 398-408.
    • (2009) Methods , vol.48 , pp. 398-408
    • Gilchrist, D.A.1    Fargo, D.C.2    Adelman, K.3
  • 19
    • 0033018842 scopus 로고    scopus 로고
    • Nipped-B, a Drosophila homologue of chromosomal adherins, participates in activation by remote enhancers in the cut and Ultrabithorax genes
    • Rollins RA, Morcillo P, Dorsett D, (1999) Nipped-B, a Drosophila homologue of chromosomal adherins, participates in activation by remote enhancers in the cut and Ultrabithorax genes. Genetics 152: 577-593.
    • (1999) Genetics , vol.152 , pp. 577-593
    • Rollins, R.A.1    Morcillo, P.2    Dorsett, D.3
  • 20
    • 79955952481 scopus 로고    scopus 로고
    • Cohesin mediates chromatin interactions that regulate mammalian β-globin expression
    • Chien R, Zeng W, Kawauchi S, Bender MA, Santos R, et al. (2011) Cohesin mediates chromatin interactions that regulate mammalian β-globin expression. J Biol Chem 286: 17870-17878.
    • (2011) J Biol Chem , vol.286 , pp. 17870-17878
    • Chien, R.1    Zeng, W.2    Kawauchi, S.3    Bender, M.A.4    Santos, R.5
  • 22
    • 79953060951 scopus 로고    scopus 로고
    • Comprehensive analysis of the chromatin landscape in Drosophila melanogaster
    • Kharchenko PV, Alekseyenko AA, Schwartz YB, Minoda A, Riddle NC, et al. (2011) Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. Nature 471: 480-485.
    • (2011) Nature , vol.471 , pp. 480-485
    • Kharchenko, P.V.1    Alekseyenko, A.A.2    Schwartz, Y.B.3    Minoda, A.4    Riddle, N.C.5
  • 23
    • 78651335916 scopus 로고    scopus 로고
    • REDfly v3.0: toward a comprehensive database of transcriptional regulatory elements in Drosophila
    • Database issue
    • Gallo SM, Gerrard DT, Miner D, Simich M, Des Soye B, et al. (2011) REDfly v3.0: toward a comprehensive database of transcriptional regulatory elements in Drosophila. Nucleic Acids Res 39 (Database issue): D118-123.
    • (2011) Nucleic Acids Res , vol.39
    • Gallo, S.M.1    Gerrard, D.T.2    Miner, D.3    Simich, M.4    Des Soye, B.5
  • 24
    • 0028951563 scopus 로고
    • Structure and regulation of a complex locus: the cut gene of Drosophila
    • Jack J, DeLotto Y, (1995) Structure and regulation of a complex locus: the cut gene of Drosophila. Genetics 139: 1689-1700.
    • (1995) Genetics , vol.139 , pp. 1689-1700
    • Jack, J.1    DeLotto, Y.2
  • 25
    • 0025943096 scopus 로고
    • Expression of the cut locus in the Drosophila wing margin is required for cell type specification and is regulated by a distant enhancer
    • Jack J, Dorsett D, Delotto Y, Liu S, (1991) Expression of the cut locus in the Drosophila wing margin is required for cell type specification and is regulated by a distant enhancer. Development 113: 735-747.
    • (1991) Development , vol.113 , pp. 735-747
    • Jack, J.1    Dorsett, D.2    Delotto, Y.3    Liu, S.4
  • 26
    • 0022230198 scopus 로고
    • Molecular organization of the cut locus of Drosophila melanogaster
    • Jack JW, (1985) Molecular organization of the cut locus of Drosophila melanogaster. Cell 42: 869-876.
    • (1985) Cell , vol.42 , pp. 869-876
    • Jack, J.W.1
  • 27
    • 77955267029 scopus 로고    scopus 로고
    • Positive regulation of c-Myc by cohesin is direct, and evolutionarily conserved
    • Rhodes JM, Bentley FK, Print CG, Dorsett D, Misulovin Z, et al. (2010) Positive regulation of c-Myc by cohesin is direct, and evolutionarily conserved. Dev Biol 344: 637-649.
    • (2010) Dev Biol , vol.344 , pp. 637-649
    • Rhodes, J.M.1    Bentley, F.K.2    Print, C.G.3    Dorsett, D.4    Misulovin, Z.5
  • 28
    • 39949083011 scopus 로고    scopus 로고
    • Drosophila growth and development in the absence of dMyc and dMnt
    • Pierce SB, Yost C, Anderson SA, Flynn EM, Delrow J, et al. (2008) Drosophila growth and development in the absence of dMyc and dMnt. Dev Biol 315: 303-316.
    • (2008) Dev Biol , vol.315 , pp. 303-316
    • Pierce, S.B.1    Yost, C.2    Anderson, S.A.3    Flynn, E.M.4    Delrow, J.5
  • 29
    • 84867021989 scopus 로고    scopus 로고
    • Transcriptional amplification in tumor cells with elevated c-Myc
    • Lin CY, Lovén J, Rahl PB, Paranal RM, Burge CB, et al. (2012) Transcriptional amplification in tumor cells with elevated c-Myc. Cell 151: 56-67.
    • (2012) Cell , vol.151 , pp. 56-67
    • Lin, C.Y.1    Lovén, J.2    Rahl, P.B.3    Paranal, R.M.4    Burge, C.B.5
  • 30
    • 84867010006 scopus 로고    scopus 로고
    • c-Myc is a universal amplifier of expressed genes in lymphocytes and embryonic stem cells
    • Nie Z, Hu G, Wei G, Cui K, Yamane A, et al. (2012) c-Myc is a universal amplifier of expressed genes in lymphocytes and embryonic stem cells. Cell 151: 68-79.
    • (2012) Cell , vol.151 , pp. 68-79
    • Nie, Z.1    Hu, G.2    Wei, G.3    Cui, K.4    Yamane, A.5
  • 31
    • 33746403681 scopus 로고    scopus 로고
    • Controlling the elongation phase of transcription with P-TEFb
    • Peterlin BM, Price DH, (2006) Controlling the elongation phase of transcription with P-TEFb. Mol Cell 23: 297-305.
    • (2006) Mol Cell , vol.23 , pp. 297-305
    • Peterlin, B.M.1    Price, D.H.2
  • 32
    • 77958587420 scopus 로고    scopus 로고
    • CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1
    • Bartkowiak B, Liu P, Phatnani HP, Fuda NJ, Cooper JJ, et al. (2010) CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. Genes Dev 24: 2303-2316.
    • (2010) Genes Dev , vol.24 , pp. 2303-2316
    • Bartkowiak, B.1    Liu, P.2    Phatnani, H.P.3    Fuda, N.J.4    Cooper, J.J.5
  • 33
    • 77957317483 scopus 로고    scopus 로고
    • The multiple roles of TDP-43 in pre-mRNA processing and gene expression regulation
    • Buratti E, Baralle FE, (2010) The multiple roles of TDP-43 in pre-mRNA processing and gene expression regulation. RNA Biol 7: 420-429.
    • (2010) RNA Biol , vol.7 , pp. 420-429
    • Buratti, E.1    Baralle, F.E.2
  • 36
    • 79953185674 scopus 로고    scopus 로고
    • Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43
    • Polymenidou M, Lagier-Tourenne C, Hutt KR, Huelga SC, Moran J, et al. (2011) Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43. Nat Neurosci 14: 459-468.
    • (2011) Nat Neurosci , vol.14 , pp. 459-468
    • Polymenidou, M.1    Lagier-Tourenne, C.2    Hutt, K.R.3    Huelga, S.C.4    Moran, J.5
  • 37
    • 84868325694 scopus 로고    scopus 로고
    • Cohesin regulates tissue-specific expression by stabilizing highly occupied cis-regulatory modules
    • Faure AJ, Schmidt D, Watt S, Schwalie PC, Wilson MD, et al. (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
  • 38
    • 84860580120 scopus 로고    scopus 로고
    • Role of Mediator in regulating Pol II elongation and nucleosome displacement in Saccharomyces cerevisiae
    • Kremer SB, Kim S, Jeon JO, Moustafa YW, Chen A, et al. (2012) Role of Mediator in regulating Pol II elongation and nucleosome displacement in Saccharomyces cerevisiae. Genetics 191: 95-106.
    • (2012) Genetics , vol.191 , pp. 95-106
    • Kremer, S.B.1    Kim, S.2    Jeon, J.O.3    Moustafa, Y.W.4    Chen, A.5
  • 39
    • 34547525335 scopus 로고    scopus 로고
    • Identification of a regulator of transcription elongation as an accessory factor for the human Mediator coactivator
    • Malik S, Barrero MJ, Jones T, (2007) Identification of a regulator of transcription elongation as an accessory factor for the human Mediator coactivator. Proc Natl Acad Sci U S A 104: 6182-6187.
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 6182-6187
    • Malik, S.1    Barrero, M.J.2    Jones, T.3
  • 40
    • 79959939884 scopus 로고    scopus 로고
    • Human mediator subunit MED26 functions as a docking site for transcription elongation factors
    • Takahashi H, Parmely TJ, Sato S, Tomomori-Sato C, Banks CA, et al. (2011) Human mediator subunit MED26 functions as a docking site for transcription elongation factors. Cell 146: 92-104.
    • (2011) Cell , vol.146 , pp. 92-104
    • Takahashi, H.1    Parmely, T.J.2    Sato, S.3    Tomomori-Sato, C.4    Banks, C.A.5
  • 42
    • 70349690201 scopus 로고    scopus 로고
    • Multiple organ system defects and transcriptional dysregulation in the Nipbl(+/-) mouse, a model of Cornelia de Lange Syndrome
    • doi:10.1371/journal.pgen.1000650
    • Kawauchi S, Calof AL, Santos R, Lopez-Burks ME, Young CM, et al. (2009) Multiple organ system defects and transcriptional dysregulation in the Nipbl(+/-) mouse, a model of Cornelia de Lange Syndrome. PLoS Genet 5: e1000650 doi:10.1371/journal.pgen.1000650.
    • (2009) PLoS Genet , vol.5
    • Kawauchi, S.1    Calof, A.L.2    Santos, R.3    Lopez-Burks, M.E.4    Young, C.M.5
  • 43
    • 0027366922 scopus 로고
    • Growth manifestations in the Brachmann-de Lange syndrome
    • Kline AD, Barr M, Jackson LG, (1993) Growth manifestations in the Brachmann-de Lange syndrome. Am J Med Genet 47: 1042-1049.
    • (1993) Am J Med Genet , vol.47 , pp. 1042-1049
    • Kline, A.D.1    Barr, M.2    Jackson, L.G.3
  • 44
    • 34948877575 scopus 로고    scopus 로고
    • MSL complex is attracted to genes marked by H3K36 trimethylation using a sequence-independent mechanism
    • Larschan E, Alekseyenko AA, Gortchakov AA, Peng S, Li B, et al. (2007) MSL complex is attracted to genes marked by H3K36 trimethylation using a sequence-independent mechanism. Mol Cell 28: 121-133.
    • (2007) Mol Cell , vol.28 , pp. 121-133
    • Larschan, E.1    Alekseyenko, A.A.2    Gortchakov, A.A.3    Peng, S.4    Li, B.5
  • 45
    • 38949116410 scopus 로고    scopus 로고
    • Drosophila Pgc protein inhibits P-TEFb recruitment to chromatin in primordial germ cells
    • Hanyu-Nakamura K, Sonobe-Nojima H, Tanigawa A, Lasko P, Nakamura A, (2008) Drosophila Pgc protein inhibits P-TEFb recruitment to chromatin in primordial germ cells. Nature 451: 730-733.
    • (2008) Nature , vol.451 , pp. 730-733
    • Hanyu-Nakamura, K.1    Sonobe-Nojima, H.2    Tanigawa, A.3    Lasko, P.4    Nakamura, A.5
  • 47
    • 40449126726 scopus 로고    scopus 로고
    • Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
    • Johnson DS, Li W, Gordon DB, Bhattacharjee A, Curry B, et al. (2008) Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets. Genome Res 18: 393-403.
    • (2008) Genome Res , vol.18 , pp. 393-403
    • Johnson, D.S.1    Li, W.2    Gordon, D.B.3    Bhattacharjee, A.4    Curry, B.5
  • 48
    • 84861964081 scopus 로고    scopus 로고
    • Systematic evaluation of factors influencing ChIP-seq fidelity
    • Chen Y, Negre N, Li Q, Mieczkowska JO, Slattery M, et al. (2012) Systematic evaluation of factors influencing ChIP-seq fidelity. Nat Methods 9: 609-614.
    • (2012) Nat Methods , vol.9 , pp. 609-614
    • Chen, Y.1    Negre, N.2    Li, Q.3    Mieczkowska, J.O.4    Slattery, M.5
  • 49
    • 5344244656 scopus 로고    scopus 로고
    • R Development Core Team, R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07- Available
    • R Development Core Team. 2008. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07- Available:http://www.R-project.org.
    • (2008) R: A language and environment for statistical computing
  • 50
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: a flexible suite of utilities for comparing genomic features
    • Available
    • Quinlan AR, Hall IM, (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26: 841-842 Available:http://code.google.com/p/bedtools/.
    • (2010) Bioinformatics , vol.26 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 51
    • 79551596885 scopus 로고    scopus 로고
    • The transcriptional diversity of 25 Drosophila cell lines
    • Cherbas L, Willingham A, Zhang D, Yang L, Zou Y, et al. (2011) The transcriptional diversity of 25 Drosophila cell lines. Genome Res 21: 301-314.
    • (2011) Genome Res , vol.21 , pp. 301-314
    • Cherbas, L.1    Willingham, A.2    Zhang, D.3    Yang, L.4    Zou, Y.5


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