메뉴 건너뛰기




Volumn 22, Issue 9, 2014, Pages 1117-1123

DNA polymorphism and epigenetic marks modulate the affinity of a scaffold/matrix attachment region to the nuclear matrix

Author keywords

cancer cells; epigenetics; facioscapulohumeral dystrophy; nuclear matrix; SSLP

Indexed keywords

DNA; HISTONE H3; METHYL CPG BINDING PROTEIN 2; CHROMATIN; HISTONE; MICROSATELLITE DNA; PROTEIN BINDING;

EID: 84906244724     PISSN: 10184813     EISSN: 14765438     Source Type: Journal    
DOI: 10.1038/ejhg.2013.306     Document Type: Article
Times cited : (17)

References (41)
  • 1
    • 0034570369 scopus 로고    scopus 로고
    • Rearrangement of chromatin domains in cancer and development
    • Vassetzky YS, Hair A, Razin SV: Rearrangement of chromatin domains in cancer and development. J Cell Biochem 2000; S35: 54-60.
    • (2000) J Cell Biochem , vol.S35 , pp. 54-60
    • Vassetzky, Y.S.1    Hair, A.2    Razin, S.V.3
  • 2
    • 34248211598 scopus 로고    scopus 로고
    • Chromatin domains and regulation of transcription
    • Razin SV, Iarovaia OV, Sjakste N et al: Chromatin domains and regulation of transcription. J Mol Biol 2007; 369: 597-607.
    • (2007) J Mol Biol , vol.369 , pp. 597-607
    • Razin, S.V.1    Iarovaia, O.V.2    Sjakste, N.3
  • 3
    • 0025083057 scopus 로고
    • Studies of an 800-kilobase DNA stretch of the Drosophila X chromosome: Comapping of a subclass of scaffold-Attached regions with sequences able to replicate autonomously in Saccharomyces cerevisiae
    • Brun C, Dang Q, Miassod R: Studies of an 800-kilobase DNA stretch of the Drosophila X chromosome: comapping of a subclass of scaffold-Attached regions with sequences able to replicate autonomously in Saccharomyces cerevisiae. Mol Cell Biol 1990; 10: 5455-5463.
    • (1990) Mol Cell Biol , vol.10 , pp. 5455-5463
    • Brun, C.1    Dang, Q.2    Miassod, R.3
  • 4
    • 0029655715 scopus 로고    scopus 로고
    • Mapping of genomic DNA loop organization in a 500-kilobase region of the Drosophila X chromosome by the topoisomerase II-mediated DNA loop excision protocol
    • Iarovaia O, Hancock R, Lagarkova M, Miassod R, Razin SV: Mapping of genomic DNA loop organization in a 500-kilobase region of the Drosophila X chromosome by the topoisomerase II-mediated DNA loop excision protocol. Mol Cell Biol 1996; 16: 302-308.
    • (1996) Mol Cell Biol , vol.16 , pp. 302-308
    • Iarovaia, O.1    Hancock, R.2    Lagarkova, M.3    Miassod, R.4    Razin, S.V.5
  • 5
    • 10644297060 scopus 로고    scopus 로고
    • Mapping long-range chromatin organization within the chicken alpha-globin gene domain using oligonucleotide DNA arrays
    • Ioudinkova E, Petrov A, Razin SV, Vassetzky YS: Mapping long-range chromatin organization within the chicken alpha-globin gene domain using oligonucleotide DNA arrays. Genomics 2005; 85: 143-151.
    • (2005) Genomics , vol.85 , pp. 143-151
    • Ioudinkova, E.1    Petrov, A.2    Razin, S.V.3    Vassetzky, Y.S.4
  • 6
    • 59049098879 scopus 로고    scopus 로고
    • Differential nuclear scaffold/matrix attachment marks expressed genes
    • Linnemann AK, Platts AE, Krawetz SA: Differential nuclear scaffold/matrix attachment marks expressed genes. Hum Mol Genet 2009; 18: 645-654.
    • (2009) Hum Mol Genet , vol.18 , pp. 645-654
    • Linnemann, A.K.1    Platts, A.E.2    Krawetz, S.A.3
  • 8
    • 33749349795 scopus 로고    scopus 로고
    • In silico prediction and observations of nuclear matrix attachment
    • Platts AE, Quayle AK, Krawetz SA: In silico prediction and observations of nuclear matrix attachment. Cell Mol Biol Lett 2006; 11: 191-213.
    • (2006) Cell Mol Biol Lett , vol.11 , pp. 191-213
    • Platts, A.E.1    Quayle, A.K.2    Krawetz, S.A.3
  • 9
    • 0021675784 scopus 로고
    • Organization of the higher-order chromatin loop: Specific DNA attachment sites on nuclear scaffold
    • Mirkovitch J, Mirault ME, Laemmli UK: Organization of the higher-order chromatin loop: specific DNA attachment sites on nuclear scaffold. Cell 1984; 39: 223-232.
    • (1984) Cell , vol.39 , pp. 223-232
    • Mirkovitch, J.1    Mirault, M.E.2    Laemmli, U.K.3
  • 10
    • 0033840558 scopus 로고    scopus 로고
    • Analysis of the chicken DNA fragments that contain structural sites of attachment to the nuclear matrix: DNA-matrix interactions and replication
    • Vassetzky YS, Bogdanova AN, Razin SV: Analysis of the chicken DNA fragments that contain structural sites of attachment to the nuclear matrix: DNA-matrix interactions and replication. J Cell Biochem 2000; 79: 1-14.
    • (2000) J Cell Biochem , vol.79 , pp. 1-14
    • Vassetzky, Y.S.1    Bogdanova, A.N.2    Razin, S.V.3
  • 11
    • 0034659363 scopus 로고    scopus 로고
    • Rearrangement of chromatin domains during development in Xenopus
    • Vassetzky Y, Hair A, Mechali M: Rearrangement of chromatin domains during development in Xenopus. Genes Dev 2000; 14: 1541-1552.
    • (2000) Genes Dev , vol.14 , pp. 1541-1552
    • Vassetzky, Y.1    Hair, A.2    Mechali, M.3
  • 12
    • 0027217084 scopus 로고
    • Apoptotic death in epithelial cells: Cleavage of DNA to 300 and/or 50 kb fragments prior to or in the absence of internucleosomal fragmentation
    • Oberhammer F, Wilson JW, Dive C et al: Apoptotic death in epithelial cells: cleavage of DNA to 300 and/or 50 kb fragments prior to or in the absence of internucleosomal fragmentation. EMBO J 1993; 12: 3679-3684.
    • (1993) EMBO J , vol.12 , pp. 3679-3684
    • Oberhammer, F.1    Wilson, J.W.2    Dive, C.3
  • 13
    • 33646485687 scopus 로고    scopus 로고
    • Chromatin loop domain organization within the 4q35 locus in facioscapulohumeral dystrophy patients versus normal human myoblasts
    • Petrov A, Pirozhkova I, Laoudj D, Carnac G, Lipinski M, Vassetzky YS: Chromatin loop domain organization within the 4q35 locus in facioscapulohumeral dystrophy patients versus normal human myoblasts. Proc Natl Acad Sci USA 2006; 103: 6982-6987.
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 6982-6987
    • Petrov, A.1    Pirozhkova, I.2    Laoudj, D.3    Carnac, G.4    Lipinski, M.5    Vassetzky, Y.S.6
  • 14
    • 38049094992 scopus 로고    scopus 로고
    • A nuclear matrix attachment site in the 4q35 locus has an enhancer-blocking activity in vivo: Implications for the facio-scapulo-humeral dystrophy
    • Petrov AV, Allinne J, Pirozhkova IV, Laoudj D, Lipinski M, Vassetzky YS: A nuclear matrix attachment site in the 4q35 locus has an enhancer-blocking activity in vivo: implications for the facio-scapulo-humeral dystrophy. Genome Res 2008; 18: 39-45.
    • (2008) Genome Res , vol.18 , pp. 39-45
    • Petrov, A.V.1    Allinne, J.2    Pirozhkova, I.V.3    Laoudj, D.4    Lipinski, M.5    Vassetzky, Y.S.6
  • 15
    • 0023792796 scopus 로고
    • Chromatin domain surrounding the human interferon-beta gene as defined by scaffold-Attached regions
    • Bode J, Maass K: Chromatin domain surrounding the human interferon-beta gene as defined by scaffold-Attached regions. Biochemistry 1988; 27: 4706-4711.
    • (1988) Biochemistry , vol.27 , pp. 4706-4711
    • Bode, J.1    Maass, K.2
  • 16
    • 0032709770 scopus 로고    scopus 로고
    • Nuclear matrix attachment regions antagonize methylation-dependent repression of long-range enhancer-promoter interactions
    • Forrester WC, Fernandez LA, Grosschedl R: Nuclear matrix attachment regions antagonize methylation-dependent repression of long-range enhancer-promoter interactions. Genes Dev 1999; 13: 3003-3014.
    • (1999) Genes Dev , vol.13 , pp. 3003-3014
    • Forrester, W.C.1    Fernandez, L.A.2    Grosschedl, R.3
  • 17
    • 0034750803 scopus 로고    scopus 로고
    • Matrix attachment region-dependent function of the immunoglobulin mu enhancer involves histone acetylation at a distance without changes in enhancer occupancy
    • Fernandez LA, Winkler M, Grosschedl R: Matrix attachment region-dependent function of the immunoglobulin mu enhancer involves histone acetylation at a distance without changes in enhancer occupancy. Mol Cell Biol 2001; 21: 196-208.
    • (2001) Mol Cell Biol , vol.21 , pp. 196-208
    • Fernandez, L.A.1    Winkler, M.2    Grosschedl, R.3
  • 18
    • 0036208002 scopus 로고    scopus 로고
    • Scaffold/matrix attachment region elements interact with a p300-scaffold attachment factor A complex and are bound by acetylated nucleosomes
    • Martens JH, Verlaan M, Kalkhoven E, Dorsman JC, Zantema A: Scaffold/matrix attachment region elements interact with a p300-scaffold attachment factor A complex and are bound by acetylated nucleosomes. Mol Cell Biol 2002; 22: 2598-2606.
    • (2002) Mol Cell Biol , vol.22 , pp. 2598-2606
    • Martens, J.H.1    Verlaan, M.2    Kalkhoven, E.3    Dorsman, J.C.4    Zantema, A.5
  • 19
    • 55949083347 scopus 로고    scopus 로고
    • Epigenetic mechanisms of facioscapulo-humeral muscular dystrophy
    • deGreef JC, Frants RR, van der Maarel SM: Epigenetic mechanisms of facioscapulo-humeral muscular dystrophy. Mutat Res 2008; 647: 94-102.
    • (2008) Mutat Res , vol.647 , pp. 94-102
    • Degreef, J.C.1    Frants, R.R.2    Van Der Maarel, S.M.3
  • 20
    • 58849093548 scopus 로고    scopus 로고
    • Pearls in the junk: Dissecting the molecular pathogenesis of facioscapulohumeral muscular dystrophy
    • Dmitriev P, Lipinski M, Vassetzky YS: Pearls in the junk: dissecting the molecular pathogenesis of facioscapulohumeral muscular dystrophy. Neuromusc Disord 2009; 19: 17-20.
    • (2009) Neuromusc Disord , vol.19 , pp. 17-20
    • Dmitriev, P.1    Lipinski, M.2    Vassetzky, Y.S.3
  • 21
    • 80455173397 scopus 로고    scopus 로고
    • FSHD myoblasts fail to downregulate intermediate filament protein vimentin during myogenic differentiation
    • Dmitriev P, Barat A, Cochet E et al: FSHD myoblasts fail to downregulate intermediate filament protein vimentin during myogenic differentiation. Biopolym Cell 2011; 27: 359-363.
    • (2011) Biopolym Cell , vol.27 , pp. 359-363
    • Dmitriev, P.1    Barat, A.2    Cochet, E.3
  • 22
    • 77957327192 scopus 로고    scopus 로고
    • A unifying genetic model for facioscapulohumeral muscular dystrophy
    • Lemmers RJ, van der Vliet PJ, Klooster R et al: A unifying genetic model for facioscapulohumeral muscular dystrophy. Science 2010; 329: 1650-1653.
    • (2010) Science , vol.329 , pp. 1650-1653
    • Lemmers, R.J.1    Van Der Vliet, P.J.2    Klooster, R.3
  • 23
    • 35348907287 scopus 로고    scopus 로고
    • Specific sequence variations within the 4q35 region are associated with facioscapulohumeral muscular dystrophy
    • Lemmers RJ, Wohlgemuth M, van der Gaag KJ et al: Specific sequence variations within the 4q35 region are associated with facioscapulohumeral muscular dystrophy. Am J Hum Genet 2007; 81: 884-894.
    • (2007) Am J Hum Genet , vol.81 , pp. 884-894
    • Lemmers, R.J.1    Wohlgemuth, M.2    Van Der Gaag, K.J.3
  • 24
    • 77649231841 scopus 로고    scopus 로고
    • Worldwide population analysis of the 4q and 10q subtelomeres identifies only four discrete interchromosomal sequence transfers in human evolution
    • Lemmers RJ, van der Vliet PJ, van der Gaag KJ et al: Worldwide population analysis of the 4q and 10q subtelomeres identifies only four discrete interchromosomal sequence transfers in human evolution. Am J Hum Genet 2010; 86: 364-377.
    • (2010) Am J Hum Genet , vol.86 , pp. 364-377
    • Lemmers, R.J.1    Van Der Vliet, P.J.2    Van Der Gaag, K.J.3
  • 25
    • 77955040810 scopus 로고    scopus 로고
    • The MeCP2/YY1 interaction regulates ANT1 expression at 4q35: Novel hints for Rett syndrome pathogenesis
    • Forlani G, Giarda E, Ala U et al: The MeCP2/YY1 interaction regulates ANT1 expression at 4q35: novel hints for Rett syndrome pathogenesis. Hum Mol Genet 2010; 19: 3114-3123.
    • (2010) Hum Mol Genet , vol.19 , pp. 3114-3123
    • Forlani, G.1    Giarda, E.2    Ala, U.3
  • 26
    • 0034162852 scopus 로고    scopus 로고
    • Whole-genome methylation scan in ICF syndrome: Hypomethylation of non-satellite DNA repeats D4Z4 and NBL2
    • Kondo T, Bobek MP, Kuick R et al: Whole-genome methylation scan in ICF syndrome: hypomethylation of non-satellite DNA repeats D4Z4 and NBL2. Hum Mol Genet 2000; 9: 597-604.
    • (2000) Hum Mol Genet , vol.9 , pp. 597-604
    • Kondo, T.1    Bobek, M.P.2    Kuick, R.3
  • 27
    • 70450222400 scopus 로고    scopus 로고
    • Common epigenetic changes of D4Z4 in contraction-dependent and contraction-independent FSHD
    • de Greef JC, Lemmers RJ, van Engelen BG et al: Common epigenetic changes of D4Z4 in contraction-dependent and contraction-independent FSHD. Hum Mutat 2009; 30: 1449-1459.
    • (2009) Hum Mutat , vol.30 , pp. 1449-1459
    • De Greef, J.C.1    Lemmers, R.J.2    Van Engelen, B.G.3
  • 28
    • 33749039999 scopus 로고    scopus 로고
    • Genome-wide hypomethylation in human glioblastomas associated with specific copy number alteration, methylene-tetrahydrofolate reductase allele status, and increased proliferation
    • Cadieux B, Ching TT, VandenBerg SR, Costello JF: Genome-wide hypomethylation in human glioblastomas associated with specific copy number alteration, methylene-tetrahydrofolate reductase allele status, and increased proliferation. Cancer Res 2006; 66: 8469-8476.
    • (2006) Cancer Res , vol.66 , pp. 8469-8476
    • Cadieux, B.1    Ching, T.T.2    Vandenberg, S.R.3    Costello, J.F.4
  • 29
    • 42449109111 scopus 로고    scopus 로고
    • Epigenetics of a tandem DNA repeat: Chromatin DNaseI sensitivity and opposite methylation changes in cancers
    • Tsumagari K, Qi L, Jackson K et al: Epigenetics of a tandem DNA repeat: chromatin DNaseI sensitivity and opposite methylation changes in cancers. Nucleic Acids Res 2008; 36: 2196-2207.
    • (2008) Nucleic Acids Res , vol.36 , pp. 2196-2207
    • Tsumagari, K.1    Qi, L.2    Jackson, K.3
  • 30
    • 67650733262 scopus 로고    scopus 로고
    • Hypermethylation of genomic 3.3-kb repeats is frequent event in HPV-positive cervical cancer
    • Katargin AN, Pavlova LS, Kisseljov FL, Kisseljova NP: Hypermethylation of genomic 3.3-kb repeats is frequent event in HPV-positive cervical cancer. BMC Med Genom 2009; 2: 30.
    • (2009) BMC Med Genom , vol.2 , pp. 30
    • Katargin, A.N.1    Pavlova, L.S.2    Kisseljov, F.L.3    Kisseljova, N.P.4
  • 31
    • 67650067284 scopus 로고    scopus 로고
    • Changes in DNA methylation of tandem DNA repeats are different from interspersed repeats in cancer
    • Choi SH, Worswick S, Byun HM et al: Changes in DNA methylation of tandem DNA repeats are different from interspersed repeats in cancer. Int J Cancer 2009; 125: 723-729.
    • (2009) Int J Cancer , vol.125 , pp. 723-729
    • Choi, S.H.1    Worswick, S.2    Byun, H.M.3
  • 32
    • 64949116602 scopus 로고    scopus 로고
    • Subtelomeric DNA hypomethylation is not required for telomeric sister chromatid exchanges in ALT cells
    • Tilman G, Loriot A, Van Beneden A et al: Subtelomeric DNA hypomethylation is not required for telomeric sister chromatid exchanges in ALT cells. Oncogene 2009; 28: 1682-1693.
    • (2009) Oncogene , vol.28 , pp. 1682-1693
    • Tilman, G.1    Loriot, A.2    Van Beneden, A.3
  • 33
    • 77951954873 scopus 로고    scopus 로고
    • Primary myoblasts derived from the facioscapulohumeral dystrophy patients are hypersensitive to oxidative stress and show defects upon terminal differentiation
    • Barro M, Carnac G, Flavier S, Mercier J, Vassetzky YS, Laoudj-Chenivesse D: Primary myoblasts derived from the facioscapulohumeral dystrophy patients are hypersensitive to oxidative stress and show defects upon terminal differentiation. J Cell Mol Med 2010; 14: 275-289.
    • (2010) J Cell Mol Med , vol.14 , pp. 275-289
    • Barro, M.1    Carnac, G.2    Flavier, S.3    Mercier, J.4    Vassetzky, Y.S.5    Laoudj-Chenivesse, D.6
  • 34
    • 0005061982 scopus 로고    scopus 로고
    • Analysis of nuclear scaffold attachment regions
    • Gould H (ed), Oxford, UK: Oxford University Press
    • Gasser SM, Vassetzky YS: Analysis of nuclear scaffold attachment regions. In: Gould H (ed) Chromatin: A Pratical Approach. Oxford, UK: Oxford University Press, 1998; pp 111-124.
    • (1998) Chromatin: A Pratical Approach , pp. 111-124
    • Gasser, S.M.1    Vassetzky, Y.S.2
  • 35
    • 0342316480 scopus 로고    scopus 로고
    • Origin and roles of nuclear matrix proteins, Specific functions of the MAR-binding protein MeCP2/ARBP
    • Stratling WH, Yu F: Origin and roles of nuclear matrix proteins. Specific functions of the MAR-binding protein MeCP2/ARBP. Crit Rev Eukaryot Gene Expr 1999; 9: 311-318.
    • (1999) Crit Rev Eukaryot Gene Expr , vol.9 , pp. 311-318
    • Stratling, W.H.1    Yu, F.2
  • 36
    • 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: Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome. Nat Genet 2005; 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
  • 37
    • 60349099608 scopus 로고    scopus 로고
    • Interaction in vivo between the two matrix attachment regions flanking a single chromatin loop
    • Eivazova ER, Gavrilov A, Pirozhkova I et al: Interaction in vivo between the two matrix attachment regions flanking a single chromatin loop. J Mol Biol 2009; 386: 929-937.
    • (2009) J Mol Biol , vol.386 , pp. 929-937
    • Eivazova, E.R.1    Gavrilov, A.2    Pirozhkova, I.3
  • 38
  • 39
    • 68249088114 scopus 로고    scopus 로고
    • Specific loss of histone H3 lysine 9 trimethylation and HP1gamma/cohesin binding at D4Z4 repeats is associated with facioscapulo-humeral dystrophy (FSHD)
    • Zeng W, de Greef JC, Chen YY et al: Specific loss of histone H3 lysine 9 trimethylation and HP1gamma/cohesin binding at D4Z4 repeats is associated with facioscapulo-humeral dystrophy (FSHD). PLoS Genet 2009; 5: e1000559.
    • (2009) PLoS Genet , vol.5
    • Zeng, W.1    De Greef, J.C.2    Chen, Y.Y.3
  • 40
    • 0345257778 scopus 로고    scopus 로고
    • Hypomethylation of D4Z4 in 4q-linked and non-4q-linked facioscapulohumeral muscular dystrophy
    • van Overveld PG, Lemmers RJ, Sandkuijl LA et al: Hypomethylation of D4Z4 in 4q-linked and non-4q-linked facioscapulohumeral muscular dystrophy. Nat Genet 2003; 35: 315-317.
    • (2003) Nat Genet , vol.35 , pp. 315-317
    • Van Overveld, P.G.1    Lemmers, R.J.2    Sandkuijl, L.A.3
  • 41
    • 0030745624 scopus 로고    scopus 로고
    • Chicken MAR-binding protein ARBP is homologous to rat methyl-CpG-binding protein MeCP2
    • Weitzel JM, Buhrmester H, Stratling WH: Chicken MAR-binding protein ARBP is homologous to rat methyl-CpG-binding protein MeCP2. Mol Cell Biol 1997; 17: 5656-5666.
    • (1997) Mol Cell Biol , vol.17 , pp. 5656-5666
    • Weitzel, J.M.1    Buhrmester, H.2    Stratling, W.H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.