메뉴 건너뛰기




Volumn 498, Issue 1, 2012, Pages 75-80

NMETR: Technique for facile recovery of hypomethylation genomic tags

Author keywords

Alu retrotransposon; Epigenetics; Genome wide analysis; Genomic repeats; Methylation; Next generation sequencing

Indexed keywords

GENOMIC DNA; OLIGONUCLEOTIDE; RESTRICTION ENDONUCLEASE;

EID: 84858157720     PISSN: 03781119     EISSN: 18790038     Source Type: Journal    
DOI: 10.1016/j.gene.2012.01.097     Document Type: Article
Times cited : (2)

References (34)
  • 1
    • 33746042141 scopus 로고    scopus 로고
    • Methylation-free site patterns along a 1-Mb locus on Chr19 in cancerous and normal cells are similar. A new fast approach for analyzing unmethylated CCGG sites distribution
    • Azhikina T., Gainetdinov I., Skvortsova Y., Sverdlov E. Methylation-free site patterns along a 1-Mb locus on Chr19 in cancerous and normal cells are similar. A new fast approach for analyzing unmethylated CCGG sites distribution. Mol. Genet. Genomics 2006, 275:615-622.
    • (2006) Mol. Genet. Genomics , vol.275 , pp. 615-622
    • Azhikina, T.1    Gainetdinov, I.2    Skvortsova, Y.3    Sverdlov, E.4
  • 2
    • 79958285518 scopus 로고    scopus 로고
    • An introduction to epigenetics
    • Ballestar E. An introduction to epigenetics. Adv. Exp. Med. Biol. 2011, 711:1-11.
    • (2011) Adv. Exp. Med. Biol. , vol.711 , pp. 1-11
    • Ballestar, E.1
  • 3
    • 74849095591 scopus 로고    scopus 로고
    • Novel family of human transposable elements formed due to fusion of the first exon of gene MAST2 with retrotransposon SVA
    • Bantysh O.B., Buzdin A.A. Novel family of human transposable elements formed due to fusion of the first exon of gene MAST2 with retrotransposon SVA. Biochem. Biokhimiia 2009, 74:1393-1399.
    • (2009) Biochem. Biokhimiia , vol.74 , pp. 1393-1399
    • Bantysh, O.B.1    Buzdin, A.A.2
  • 4
    • 0036250811 scopus 로고    scopus 로고
    • Alu repeats and human genomic diversity
    • Batzer M.A., Deininger P.L. Alu repeats and human genomic diversity. Nat. Rev. Genet. 2002, 3:370-379.
    • (2002) Nat. Rev. Genet. , vol.3 , pp. 370-379
    • Batzer, M.A.1    Deininger, P.L.2
  • 6
    • 80052578248 scopus 로고    scopus 로고
    • Dam methylase accessibility as an instrument for analysis of mammalian chromatin structure
    • Bulanenkova S.S., et al. Dam methylase accessibility as an instrument for analysis of mammalian chromatin structure. Epigenetics 2011, 6.
    • (2011) Epigenetics , vol.6
    • Bulanenkova, S.S.1
  • 7
    • 0036195378 scopus 로고    scopus 로고
    • A technique for genome-wide identification of differences in the interspersed repeats integrations between closely related genomes and its application to detection of human-specific integrations of HERV-K LTRs
    • Buzdin A., et al. A technique for genome-wide identification of differences in the interspersed repeats integrations between closely related genomes and its application to detection of human-specific integrations of HERV-K LTRs. Genomics 2002, 79:413-422.
    • (2002) Genomics , vol.79 , pp. 413-422
    • Buzdin, A.1
  • 8
    • 33646934132 scopus 로고    scopus 로고
    • GREM, a technique for genome-wide isolation and quantitative analysis of promoter active repeats
    • Buzdin A., Kovalskaya-Alexandrova E., Gogvadze E., Sverdlov E. GREM, a technique for genome-wide isolation and quantitative analysis of promoter active repeats. Nucleic Acids Res. 2006, 34:e67.
    • (2006) Nucleic Acids Res. , vol.34
    • Buzdin, A.1    Kovalskaya-Alexandrova, E.2    Gogvadze, E.3    Sverdlov, E.4
  • 10
    • 79959899772 scopus 로고    scopus 로고
    • A comparative analysis of DNA methylation across human embryonic stem cell lines
    • Chen P.Y., Feng S., Joo J.W., Jacobsen S.E., Pellegrini M. A comparative analysis of DNA methylation across human embryonic stem cell lines. Genome Biol. 2011, 12:R62.
    • (2011) Genome Biol. , vol.12
    • Chen, P.Y.1    Feng, S.2    Joo, J.W.3    Jacobsen, S.E.4    Pellegrini, M.5
  • 11
    • 85027932742 scopus 로고    scopus 로고
    • Methylation-mediated deamination of 5-methylcytosine appears to give rise to mutations causing human inherited disease in CpNpG trinucleotides, as well as in CpG dinucleotides
    • Cooper D.N., Mort M., Stenson P.D., Ball E.V., Chuzhanova N.A. Methylation-mediated deamination of 5-methylcytosine appears to give rise to mutations causing human inherited disease in CpNpG trinucleotides, as well as in CpG dinucleotides. Hum. Genomics 2010, 4:406-410.
    • (2010) Hum. Genomics , vol.4 , pp. 406-410
    • Cooper, D.N.1    Mort, M.2    Stenson, P.D.3    Ball, E.V.4    Chuzhanova, N.A.5
  • 12
    • 70349318211 scopus 로고    scopus 로고
    • The impact of retrotransposons on human genome evolution
    • Cordaux R., Batzer M.A. The impact of retrotransposons on human genome evolution. Nat. Rev. Genet. 2009, 10:691-703.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 691-703
    • Cordaux, R.1    Batzer, M.A.2
  • 13
    • 29144435153 scopus 로고    scopus 로고
    • Footprinting of mammalian promoters: use of a CpG DNA methyltransferase revealing nucleosome positions at a single molecule level
    • Fatemi M., et al. Footprinting of mammalian promoters: use of a CpG DNA methyltransferase revealing nucleosome positions at a single molecule level. Nucleic Acids Res. 2005, 33:e176.
    • (2005) Nucleic Acids Res. , vol.33
    • Fatemi, M.1
  • 14
    • 78049427089 scopus 로고    scopus 로고
    • Introduction to epigenomics and epigenome-wide analysis
    • Fazzari M.J., Greally J.M. Introduction to epigenomics and epigenome-wide analysis. Methods Mol. Biol. 2010, 620:243-265.
    • (2010) Methods Mol. Biol. , vol.620 , pp. 243-265
    • Fazzari, M.J.1    Greally, J.M.2
  • 15
    • 1242309509 scopus 로고    scopus 로고
    • Characterization of cytosine methylated regions and 5-cytosine DNA methyltransferase (Ehmeth) in the protozoan parasite Entamoeba histolytica
    • Fisher O., Siman-Tov R., Ankri S. Characterization of cytosine methylated regions and 5-cytosine DNA methyltransferase (Ehmeth) in the protozoan parasite Entamoeba histolytica. Nucleic Acids Res. 2004, 32:287-297.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 287-297
    • Fisher, O.1    Siman-Tov, R.2    Ankri, S.3
  • 16
  • 17
    • 70849129445 scopus 로고    scopus 로고
    • Retroelements and their impact on genome evolution and functioning
    • Gogvadze E., Buzdin A. Retroelements and their impact on genome evolution and functioning. Cell Mol. Life Sci. 2009, 66:3727-3742.
    • (2009) Cell Mol. Life Sci. , vol.66 , pp. 3727-3742
    • Gogvadze, E.1    Buzdin, A.2
  • 18
    • 52949095077 scopus 로고    scopus 로고
    • Retrotransposons revisited: the restraint and rehabilitation of parasites
    • Goodier J.L., Kazazian H.H. Retrotransposons revisited: the restraint and rehabilitation of parasites. Cell 2008, 135:23-35.
    • (2008) Cell , vol.135 , pp. 23-35
    • Goodier, J.L.1    Kazazian, H.H.2
  • 20
    • 80052260149 scopus 로고    scopus 로고
    • Epigenetics in prostate cancer: biologic and clinical relevance
    • Jeronimo C., et al. Epigenetics in prostate cancer: biologic and clinical relevance. Eur. Urol. 2011, 60:753-766.
    • (2011) Eur. Urol. , vol.60 , pp. 753-766
    • Jeronimo, C.1
  • 21
    • 42349111552 scopus 로고    scopus 로고
    • A universal classification of eukaryotic transposable elements implemented in Repbase
    • author reply 414
    • Kapitonov V.V., Jurka J. A universal classification of eukaryotic transposable elements implemented in Repbase. Nat. Rev. Genet. 2008, 9:411-412. author reply 414.
    • (2008) Nat. Rev. Genet. , vol.9 , pp. 411-412
    • Kapitonov, V.V.1    Jurka, J.2
  • 22
    • 0031566188 scopus 로고    scopus 로고
    • Construction of cDNA libraries from small amounts of total RNA using the suppression PCR effect
    • Lukyanov K., et al. Construction of cDNA libraries from small amounts of total RNA using the suppression PCR effect. Biochem. Biophys. Res. Commun. 1997, 230:285-288.
    • (1997) Biochem. Biophys. Res. Commun. , vol.230 , pp. 285-288
    • Lukyanov, K.1
  • 23
    • 0037099025 scopus 로고    scopus 로고
    • Genome-wide comparison of differences in the integration sites of interspersed repeats between closely related genomes
    • Mamedov I., Batrak A., Buzdin A., Arzumanyan E., Lebedev Y., Sverdlov E.D. Genome-wide comparison of differences in the integration sites of interspersed repeats between closely related genomes. Nucleic Acids Res. 2002, 30:e71.
    • (2002) Nucleic Acids Res. , vol.30
    • Mamedov, I.1    Batrak, A.2    Buzdin, A.3    Arzumanyan, E.4    Lebedev, Y.5    Sverdlov, E.D.6
  • 24
    • 0030738232 scopus 로고    scopus 로고
    • Ordered differential display: a simple method for systematic comparison of gene expression profiles
    • Matz M., Usman N., Shagin D., Bogdanova E., Lukyanov S. Ordered differential display: a simple method for systematic comparison of gene expression profiles. Nucleic Acids Res. 1997, 25:2541-2542.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 2541-2542
    • Matz, M.1    Usman, N.2    Shagin, D.3    Bogdanova, E.4    Lukyanov, S.5
  • 25
    • 0037977732 scopus 로고    scopus 로고
    • Amplification of cDNA ends using PCR suppression effect and step-out PCR
    • Matz M.V., Alieva N.O., Chenchik A., Lukyanov S. Amplification of cDNA ends using PCR suppression effect and step-out PCR. Methods Mol. Biol. 2003, 221:41-49.
    • (2003) Methods Mol. Biol. , vol.221 , pp. 41-49
    • Matz, M.V.1    Alieva, N.O.2    Chenchik, A.3    Lukyanov, S.4
  • 26
    • 79959393888 scopus 로고    scopus 로고
    • Correction of PCR-bias in quantitative DNA methylation studies by means of cubic polynomial regression
    • Moskalev E.A., et al. Correction of PCR-bias in quantitative DNA methylation studies by means of cubic polynomial regression. Nucleic Acids Res. 2011, 39:e77.
    • (2011) Nucleic Acids Res. , vol.39
    • Moskalev, E.A.1
  • 27
    • 84860389965 scopus 로고    scopus 로고
    • Genome-wide profiling of DNA methylation in human cancer cells
    • Ogoshi K., et al. Genome-wide profiling of DNA methylation in human cancer cells. Genomics 2011, 98:280-287.
    • (2011) Genomics , vol.98 , pp. 280-287
    • Ogoshi, K.1
  • 28
    • 79959832394 scopus 로고    scopus 로고
    • The DNA methylome
    • Pelizzola M., Ecker J.R. The DNA methylome. FEBS Lett. 2011, 585:1994-2000.
    • (2011) FEBS Lett. , vol.585 , pp. 1994-2000
    • Pelizzola, M.1    Ecker, J.R.2
  • 31
    • 31944432339 scopus 로고    scopus 로고
    • A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters
    • Saxonov S., Berg P., Brutlag D.L. A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters. Proc. Natl. Acad. Sci. U. S. A. 2006, 103:1412-1417.
    • (2006) Proc. Natl. Acad. Sci. U. S. A. , vol.103 , pp. 1412-1417
    • Saxonov, S.1    Berg, P.2    Brutlag, D.L.3
  • 33
    • 77958495847 scopus 로고    scopus 로고
    • Unique functions of repetitive transcriptomes
    • Schumann G.G., et al. Unique functions of repetitive transcriptomes. Int. Rev. Cell Mol. Biol. 2010, 285:115-188.
    • (2010) Int. Rev. Cell Mol. Biol. , vol.285 , pp. 115-188
    • Schumann, G.G.1
  • 34
    • 0027968068 scopus 로고
    • CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994, 22:4673-4680.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.