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Volumn 7, Issue 2, 2012, Pages

CTCF mediates the cell-type specific spatial organization of the kcnq5 locus and the local gene regulation

Author keywords

[No Author keywords available]

Indexed keywords

LUCIFERASE; TRANSCRIPTION FACTOR CTCF; CCCTC-BINDING FACTOR; KCNQ5 PROTEIN, HUMAN; POTASSIUM CHANNEL KCNQ; REPRESSOR PROTEIN;

EID: 84863071981     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0031416     Document Type: Article
Times cited : (18)

References (35)
  • 1
    • 40749104851 scopus 로고    scopus 로고
    • Chromatin dynamics and gene positioning
    • Kumaran RI, Thakar R, Spector DL, (2008) Chromatin dynamics and gene positioning. Cell 132: 929-934.
    • (2008) Cell , vol.132 , pp. 929-934
    • Kumaran, R.I.1    Thakar, R.2    Spector, D.L.3
  • 2
    • 34249307315 scopus 로고    scopus 로고
    • Nuclear organization of the genome the potential for gene regulation
    • Fraser P, Bickmore W, (2007) Nuclear organization of the genome the potential for gene regulation. Nature 447: 413-417.
    • (2007) Nature , vol.447 , pp. 413-417
    • Fraser, P.1    Bickmore, W.2
  • 3
    • 33847070442 scopus 로고    scopus 로고
    • The role of chromatin during transcription
    • Li B, Carey M, Workman JL, (2007) The role of chromatin during transcription. Cell 128: 707-719.
    • (2007) Cell , vol.128 , pp. 707-719
    • Li, B.1    Carey, M.2    Workman, J.L.3
  • 4
    • 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
  • 5
    • 48249153426 scopus 로고    scopus 로고
    • The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across the Human Genome
    • Fu Y, Sinha M, Peterson CL, Weng Z, (2008) The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across the Human Genome. PloS Genet 4: e1000138.
    • (2008) PloS Genet , vol.4
    • Fu, Y.1    Sinha, M.2    Peterson, C.L.3    Weng, Z.4
  • 6
    • 33745866584 scopus 로고    scopus 로고
    • The human major histocompatibility complex class II HLA-DRB1 and HLA-DQA1 genes are separated by a CTCF-binding enhancer-blocking element
    • Majumder P, Gomez JA, Boss JM, (2006) The human major histocompatibility complex class II HLA-DRB1 and HLA-DQA1 genes are separated by a CTCF-binding enhancer-blocking element. J Biol Chem 281: 18435-18443.
    • (2006) J Biol Chem , vol.281 , pp. 18435-18443
    • Majumder, P.1    Gomez, J.A.2    Boss, J.M.3
  • 7
    • 42249105007 scopus 로고    scopus 로고
    • The insulator factor CTCF controls MHC class II gene expression and is required for the formation of long-distance chromatin interactions
    • Majumder P, Gomez JA, Chadwick BP, Boss JM, (2008) The insulator factor CTCF controls MHC class II gene expression and is required for the formation of long-distance chromatin interactions. J Exp Med 205: 785-798.
    • (2008) J Exp Med , vol.205 , pp. 785-798
    • Majumder, P.1    Gomez, J.A.2    Chadwick, B.P.3    Boss, J.M.4
  • 8
    • 42249092797 scopus 로고    scopus 로고
    • The role of CTCF in regulating nuclear organization
    • Williams A, Flavell RA, (2008) The role of CTCF in regulating nuclear organization. J Exp Med 205: 747-750.
    • (2008) J Exp Med , vol.205 , pp. 747-750
    • Williams, A.1    Flavell, R.A.2
  • 9
    • 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
  • 11
    • 33750203582 scopus 로고    scopus 로고
    • 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, et al. (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
  • 12
    • 35748956435 scopus 로고    scopus 로고
    • An evaluation of 3C-based methods to capture DNA interactions
    • Simonis M, Kooren J, de Laat W, (2007) An evaluation of 3C-based methods to capture DNA interactions. Nat Methods 4: 895-901.
    • (2007) Nat Methods , vol.4 , pp. 895-901
    • Simonis, M.1    Kooren, J.2    de Laat, W.3
  • 13
    • 34548441932 scopus 로고    scopus 로고
    • Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome
    • Xi H, Shulha HP, Lin JM, Vales TR, Fu Y, et al. (2007) Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. PLoS Genet 3: e136.
    • (2007) PLoS Genet , vol.3
    • Xi, H.1    Shulha, H.P.2    Lin, J.M.3    Vales, T.R.4    Fu, Y.5
  • 14
    • 33847179784 scopus 로고    scopus 로고
    • M-channels (Kv7/KCNQ channels) that regulate synaptic integration, excitability, and spike pattern of CA1 pyramidal cells are located in the perisomatic region
    • Hu H, Vervaeke K, Storm JF, (2007) M-channels (Kv7/KCNQ channels) that regulate synaptic integration, excitability, and spike pattern of CA1 pyramidal cells are located in the perisomatic region. J Neurosci 27: 1853-1867.
    • (2007) J Neurosci , vol.27 , pp. 1853-1867
    • Hu, H.1    Vervaeke, K.2    Storm, J.F.3
  • 15
    • 34249688622 scopus 로고    scopus 로고
    • Regulation of the voltage-gated K(+) channels KCNQ2/3 and KCNQ3/5 by ubiquitination
    • Ekberg J, Schuetz F, Boase NA, Conroy SJ, Manning J, et al. (2007) Regulation of the voltage-gated K(+) channels KCNQ2/3 and KCNQ3/5 by ubiquitination. J Biol Chem 282: 12135-12142.
    • (2007) J Biol Chem , vol.282 , pp. 12135-12142
    • Ekberg, J.1    Schuetz, F.2    Boase, N.A.3    Conroy, S.J.4    Manning, J.5
  • 16
    • 0034604631 scopus 로고    scopus 로고
    • KCNQ5, a Novel Potassium Channel Broadly Expressed in Brain, Mediates M-type Currents
    • Schroeder BC, Hechenberger M, Weinreich F, Kubisch C, Jentsch TJ, (2000) KCNQ5, a Novel Potassium Channel Broadly Expressed in Brain, Mediates M-type Currents. J Biol Chem 275: 24089-24095.
    • (2000) J Biol Chem , vol.275 , pp. 24089-24095
    • Schroeder, B.C.1    Hechenberger, M.2    Weinreich, F.3    Kubisch, C.4    Jentsch, T.J.5
  • 17
    • 39449139894 scopus 로고    scopus 로고
    • High-resolution circular chromosome conformation capture assay
    • Göndör A, Rougier C, Ohlsson R, (2008) High-resolution circular chromosome conformation capture assay. Nat Protoc 3: 303-313.
    • (2008) Nat Protoc , vol.3 , pp. 303-313
    • Göndör, A.1    Rougier, C.2    Ohlsson, R.3
  • 18
    • 1642453552 scopus 로고    scopus 로고
    • 3C technology: analyzing the spatial organization of genomic loci in vivo
    • Splinter E, Grosveld F, de Laat W, (2004) 3C technology: analyzing the spatial organization of genomic loci in vivo. Methods Enzymol 375: 493-507.
    • (2004) Methods Enzymol , vol.375 , pp. 493-507
    • Splinter, E.1    Grosveld, F.2    de Laat, W.3
  • 19
    • 34548565667 scopus 로고    scopus 로고
    • Quantitative analysis of chromosome conformation capture assays (3C-qPCR)
    • Hagège H, Klous P, Braem C, Splinter E, Dekker J, et al. (2007) Quantitative analysis of chromosome conformation capture assays (3C-qPCR). Nat Protoc 2: 1722-1733.
    • (2007) Nat Protoc , vol.2 , pp. 1722-1733
    • Hagège, H.1    Klous, P.2    Braem, C.3    Splinter, E.4    Dekker, J.5
  • 20
    • 33947201809 scopus 로고    scopus 로고
    • Analysis of the Vertebrate Insulator Protein CTCF-Binding Sites in the Human Genome
    • Kim TH, Abdullaev ZK, Smith AD, Ching KA, Loukinov DI, et al. (2007) Analysis of the Vertebrate Insulator Protein CTCF-Binding Sites in the Human Genome. Cell 128: 1231-1245.
    • (2007) Cell , vol.128 , pp. 1231-1245
    • Kim, T.H.1    Abdullaev, Z.K.2    Smith, A.D.3    Ching, K.A.4    Loukinov, D.I.5
  • 21
    • 34249026300 scopus 로고    scopus 로고
    • High-Resolution Profiling of Histone Methylations in the Human Genome
    • Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, et al. (2007) High-Resolution Profiling of Histone Methylations in the Human Genome. Cell 129: 823-837.
    • (2007) Cell , vol.129 , pp. 823-837
    • Barski, A.1    Cuddapah, S.2    Cui, K.3    Roh, T.Y.4    Schones, D.E.5
  • 22
    • 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, et al. (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
  • 23
    • 39149121436 scopus 로고    scopus 로고
    • Cohesin mediates transcriptional insulation by CCCTC-binding factor
    • Wendt KS, Yoshida K, Itoh T, Bando M, Koch B, 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
  • 24
    • 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
  • 25
    • 73349127026 scopus 로고    scopus 로고
    • Cohesin: Its Roles and Mechanisms
    • Nasmyth K, Haering C, (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.2
  • 26
    • 11244328520 scopus 로고    scopus 로고
    • Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome
    • Horike S, Cai S, Miyano M, Cheng JF, Kohwi-Shigematsu T, (2005) Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome. Nat Genet 37: 31-40.
    • (2005) Nat Genet , vol.37 , pp. 31-40
    • Horike, S.1    Cai, S.2    Miyano, M.3    Cheng, J.F.4    Kohwi-Shigematsu, T.5
  • 27
    • 33750465872 scopus 로고    scopus 로고
    • SATB1 packages densely looped, transcriptionally active chromatin for coordinated expression of cytokine genes
    • Cai S, Lee CC, Kohwi-Shigematsu T, (2006) SATB1 packages densely looped, transcriptionally active chromatin for coordinated expression of cytokine genes. Nat Genet 38: 1278-1288.
    • (2006) Nat Genet , vol.38 , pp. 1278-1288
    • Cai, S.1    Lee, C.C.2    Kohwi-Shigematsu, T.3
  • 28
    • 66149167455 scopus 로고    scopus 로고
    • ChIP-based methods for the identification of long-range chromatin interactions
    • Fullwood MJ, Ruan Y, (2009) ChIP-based methods for the identification of long-range chromatin interactions. J Cell Biochem 107: 30-39.
    • (2009) J Cell Biochem , vol.107 , pp. 30-39
    • Fullwood, M.J.1    Ruan, Y.2
  • 29
    • 33749406106 scopus 로고    scopus 로고
    • Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters
    • Hogan GJ, Lee CK, Lieb JD, (2006) Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters. PLoS Genet 2: e158.
    • (2006) PLoS Genet , vol.2
    • Hogan, G.J.1    Lee, C.K.2    Lieb, J.D.3
  • 30
    • 34250369627 scopus 로고    scopus 로고
    • FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin
    • Giresi PG, Kim J, McDaniell RM, Iyer VR, Lieb JD, (2007) FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin. Genome Res 17: 877-885.
    • (2007) Genome Res , vol.17 , pp. 877-885
    • Giresi, P.G.1    Kim, J.2    McDaniell, R.M.3    Iyer, V.R.4    Lieb, J.D.5
  • 31
    • 39749145198 scopus 로고    scopus 로고
    • Dynamic Regulation of Nucleosome Positioning in the Human Genome
    • Schones DE, Cui K, Cuddapah S, Roh TY, Barski A, et al. (2008) Dynamic Regulation of Nucleosome Positioning in the Human Genome. Cell 132: 887-898.
    • (2008) Cell , vol.132 , pp. 887-898
    • Schones, D.E.1    Cui, K.2    Cuddapah, S.3    Roh, T.Y.4    Barski, A.5
  • 32
    • 70249136846 scopus 로고    scopus 로고
    • Chromosome crosstalk in three dimensions
    • Göndör A, Ohlsson R, (2009) Chromosome crosstalk in three dimensions. Nature 461: 212-217.
    • (2009) Nature , vol.461 , pp. 212-217
    • Göndör, A.1    Ohlsson, R.2
  • 33
    • 74949102277 scopus 로고    scopus 로고
    • Does CTCF mediate between nuclear organization and gene expression?
    • Ohlsson R, Lobanenkov V, Klenova E, (2010) Does CTCF mediate between nuclear organization and gene expression? Bioessays 32: 37-50.
    • (2010) Bioessays , vol.32 , pp. 37-50
    • Ohlsson, R.1    Lobanenkov, V.2    Klenova, E.3
  • 34
    • 33847076849 scopus 로고    scopus 로고
    • Chromatin modifications and their function
    • Kouzarides T, (2007) Chromatin modifications and their function. Cell 128: 693-705.
    • (2007) Cell , vol.128 , pp. 693-705
    • Kouzarides, T.1
  • 35
    • 22844457491 scopus 로고    scopus 로고
    • DNA methylation and human disease
    • Robertson KD, (2005) DNA methylation and human disease. Nat Rev Genet 6: 597-610.
    • (2005) Nat Rev Genet , vol.6 , pp. 597-610
    • Robertson, K.D.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.