메뉴 건너뛰기




Volumn 36, Issue 3, 2008, Pages

PAP-LMPCR for improved, allele-specific footprinting and automated chromatin fine structure analysis

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ALLELE; ANALYTIC METHOD; ANIMAL CELL; ARTICLE; AUTOMATION; CHROMATIN STRUCTURE; CONTROLLED STUDY; DNA FOOTPRINTING; GC RICH SEQUENCE; GENE SEQUENCE; GENETIC ANALYSIS; IN VIVO STUDY; LIGAND MEDIATED POLYMERASE CHAIN REACTION; NONHUMAN; POLYMERASE CHAIN REACTION; POLYMERIZATION; PRIORITY JOURNAL; PYROPHOSPHOROLYSIS ACTIVATED POLYMERIZATION; SEQUENCE HOMOLOGY; ANIMAL; CELL STRAIN 3T3; CHEMISTRY; CHROMATIN; EVALUATION; GENETICS; METABOLISM; METHODOLOGY; MOLECULAR GENETICS; MOUSE; NUCLEOTIDE REPEAT; NUCLEOTIDE SEQUENCE; PROMOTER REGION; ROBOTICS;

EID: 39449118585     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm1159     Document Type: Article
Times cited : (4)

References (19)
  • 1
    • 33744745866 scopus 로고    scopus 로고
    • Measuring the formation and repair of DNA damage by ligation-mediated PCR
    • Pfeifer,G.P. (2006) Measuring the formation and repair of DNA damage by ligation-mediated PCR. Methods Mol. Biol., 314, 201-214.
    • (2006) Methods Mol. Biol , vol.314 , pp. 201-214
    • Pfeifer, G.P.1
  • 2
    • 19744382774 scopus 로고    scopus 로고
    • Rapid, solid-phase based automated analysis of chromatin structure and transcription factor occupancy in living eukaryotic cells
    • Ingram,R., Tagoh,H., Riggs,A.D. and Bonifer,C. (2005) Rapid, solid-phase based automated analysis of chromatin structure and transcription factor occupancy in living eukaryotic cells. Nucleic Acids Res., 33 e1.
    • (2005) Nucleic Acids Res , vol.33
    • Ingram, R.1    Tagoh, H.2    Riggs, A.D.3    Bonifer, C.4
  • 4
    • 34848927471 scopus 로고    scopus 로고
    • Abundance of dinucleotide repeats and gene expression are inversely correlated: A role for gene function in addition to intron length
    • Sharma,V.K., Kumar,N., Brahmachari,S.K. and Ramachandran,S. (2007) Abundance of dinucleotide repeats and gene expression are inversely correlated: A role for gene function in addition to intron length. Physiol. Genomics, 31, 96-103.
    • (2007) Physiol. Genomics , vol.31 , pp. 96-103
    • Sharma, V.K.1    Kumar, N.2    Brahmachari, S.K.3    Ramachandran, S.4
  • 5
    • 0040886242 scopus 로고    scopus 로고
    • Modulation of epidermal growth factor receptor gene transcription by a polymorphic dinucleotide repeat in intron 1
    • Gebhardt,F., Zanker,K.S. and Brandt,B. (1999) Modulation of epidermal growth factor receptor gene transcription by a polymorphic dinucleotide repeat in intron 1. J. Biol. Chem., 274, 13176-13180.
    • (1999) J. Biol. Chem , vol.274 , pp. 13176-13180
    • Gebhardt, F.1    Zanker, K.S.2    Brandt, B.3
  • 6
    • 3142693973 scopus 로고    scopus 로고
    • Variation in dinucleotide (GT) repeat sequence in the first exon of the STAT6 gene is associated with atopic asthma and differentially regulates the promoter activity in vitro
    • Gao,P.S., Heller,N.M., Walker,W., Chen,C.H., Moller,M., Plunkett,B., Roberts,M.H., Schleimer,R.P., Hopkin,J.M. and Huang,S.K. (2004) Variation in dinucleotide (GT) repeat sequence in the first exon of the STAT6 gene is associated with atopic asthma and differentially regulates the promoter activity in vitro. J. Med. Genet., 41, 535-539.
    • (2004) J. Med. Genet , vol.41 , pp. 535-539
    • Gao, P.S.1    Heller, N.M.2    Walker, W.3    Chen, C.H.4    Moller, M.5    Plunkett, B.6    Roberts, M.H.7    Schleimer, R.P.8    Hopkin, J.M.9    Huang, S.K.10
  • 7
    • 0037464584 scopus 로고    scopus 로고
    • DNA triplet repeats mediate heterochromatin-protein-1-sensitive variegated gene silencing
    • Saveliev,A., Everett,C., Sharpej., Webster,Z. and Festenstein,R. (2003) DNA triplet repeats mediate heterochromatin-protein-1-sensitive variegated gene silencing. Nature, 422, 909-913.
    • (2003) Nature , vol.422 , pp. 909-913
    • Saveliev, A.1    Everett, C.2    Sharpej3    Webster, Z.4    Festenstein, R.5
  • 8
    • 14244266721 scopus 로고    scopus 로고
    • Effect of CAT or AGG interruptions and CpG methylation on nucleosome assembly upon trinucleotide repeats on spinocerebellar ataxia, type 1 and fragile X syndrome
    • Mulvihill,D.J., Nichol Edamura,K., Hagerman,K.A., Pearson,C.E. and Wang,Y.H. (2005) Effect of CAT or AGG interruptions and CpG methylation on nucleosome assembly upon trinucleotide repeats on spinocerebellar ataxia, type 1 and fragile X syndrome. J. Biol. Chem., 280, 4498-4503.
    • (2005) J. Biol. Chem , vol.280 , pp. 4498-4503
    • Mulvihill, D.J.1    Nichol Edamura, K.2    Hagerman, K.A.3    Pearson, C.E.4    Wang, Y.H.5
  • 9
    • 0033737004 scopus 로고    scopus 로고
    • Pyrophosphorolysis-activated polymerization (PAP): Application to allelle-specific amplification
    • passim
    • Liu,Q. and Sommer,S.S. (2000) Pyrophosphorolysis-activated polymerization (PAP): Application to allelle-specific amplification. Biotechniques, 29, 1072-1076, 1078, 1080 passim.
    • (2000) Biotechniques , vol.29
    • Liu, Q.1    Sommer, S.S.2
  • 10
    • 2342472111 scopus 로고    scopus 로고
    • PAP: Detection of ultra rare mutations depends on P* oligonucleotides: "sleeping beauties" awakened by the kiss of pyrophosphorolysis
    • Liu,Q. and Sommer,S.S. (2004) PAP: Detection of ultra rare mutations depends on P* oligonucleotides: "sleeping beauties" awakened by the kiss of pyrophosphorolysis. Hum. Mutat., 23, 426-436.
    • (2004) Hum. Mutat , vol.23 , pp. 426-436
    • Liu, Q.1    Sommer, S.S.2
  • 11
    • 0344494035 scopus 로고    scopus 로고
    • Pyrophosphorolysis by type II DNA polymerases: Implications for pyrophosphoralysis-activated polymerization
    • Liu,Q. and Sommer,S.S. (2004) Pyrophosphorolysis by type II DNA polymerases: Implications for pyrophosphoralysis-activated polymerization. Anal. Biochem., 324, 22-28.
    • (2004) Anal. Biochem , vol.324 , pp. 22-28
    • Liu, Q.1    Sommer, S.S.2
  • 12
    • 0037079660 scopus 로고    scopus 로고
    • Pyrophosphorolysis-activatable oligonucleotides may facilitate detection of rare alleles, mutation scanning and analysis of chromatin structures
    • Liu,Q. and Sommer,S.S. (2002) Pyrophosphorolysis-activatable oligonucleotides may facilitate detection of rare alleles, mutation scanning and analysis of chromatin structures. Nucleic Acids Res., 30, 598-604.
    • (2002) Nucleic Acids Res , vol.30 , pp. 598-604
    • Liu, Q.1    Sommer, S.S.2
  • 13
    • 0032617543 scopus 로고    scopus 로고
    • Measuring the formation and repair of UV photoproducts by ligation-mediated PCR
    • Pfeifcr,G.P. and Dammann,R. (1999) Measuring the formation and repair of UV photoproducts by ligation-mediated PCR. Methods Mol. Biol., 113, 213-226.
    • (1999) Methods Mol. Biol , vol.113 , pp. 213-226
    • Pfeifcr, G.P.1    Dammann, R.2
  • 14
    • 0034663810 scopus 로고    scopus 로고
    • Chromatin fine structure profiles for a developmentally regulated gene: Reorganization of the lysozyme locus before'trans-activator binding and gene expression
    • Kontaraki J., Chen,H.H., Riggs,A. and Bonifer,C. (2000) Chromatin fine structure profiles for a developmentally regulated gene: Reorganization of the lysozyme locus before'trans-activator binding and gene expression. Genes Dev., 14, 2106-2122.
    • (2000) Genes Dev , vol.14 , pp. 2106-2122
    • Kontaraki, J.1    Chen, H.H.2    Riggs, A.3    Bonifer, C.4
  • 15
    • 23044483908 scopus 로고    scopus 로고
    • Lefevre,P., Lacroix,C., Tagoh.H., Hoogenkamp,M., Melnik,S., Ingram,R. and Bonifer,C. (2005) Differentiation-dependent alterations in histone methylation and chromatin architecture at the inducible chicken lysozymc gene. J. Biol. Chem., 280, 27552-27560.
    • Lefevre,P., Lacroix,C., Tagoh.H., Hoogenkamp,M., Melnik,S., Ingram,R. and Bonifer,C. (2005) Differentiation-dependent alterations in histone methylation and chromatin architecture at the inducible chicken lysozymc gene. J. Biol. Chem., 280, 27552-27560.
  • 16
    • 0035934175 scopus 로고    scopus 로고
    • The enhancement of PCR amplification by low molecular-weight sulfones
    • Chakrabarti,R. and Schutt,C.E. (2001) The enhancement of PCR amplification by low molecular-weight sulfones. Gene, 274, 293-298.
    • (2001) Gene , vol.274 , pp. 293-298
    • Chakrabarti, R.1    Schutt, C.E.2
  • 17
    • 0034219149 scopus 로고    scopus 로고
    • New specificity and yield enhancer of polymerase chain reactions
    • Kovarova,M. and Draber,P. (2000) New specificity and yield enhancer of polymerase chain reactions. Nucleic Acids Res., 28, E70.
    • (2000) Nucleic Acids Res , vol.28
    • Kovarova, M.1    Draber, P.2
  • 18
    • 0036645169 scopus 로고    scopus 로고
    • Transcription factor complex formation and chromatin fine structure alterations at the murine c-fms (CSF-1 receptor) locus during maturation of myeloid precursor cells
    • Tagoh,H., Himes,R., Clarke,D., Leenen,P.J., Riggs,A.D., Hume,D. and Bonifer,C. (2002) Transcription factor complex formation and chromatin fine structure alterations at the murine c-fms (CSF-1 receptor) locus during maturation of myeloid precursor cells. Genes Dev., 16 1721-1737.
    • (2002) Genes Dev , vol.16 , pp. 1721-1737
    • Tagoh, H.1    Himes, R.2    Clarke, D.3    Leenen, P.J.4    Riggs, A.D.5    Hume, D.6    Bonifer, C.7
  • 19
    • 35648987137 scopus 로고    scopus 로고
    • The Pu.1 locus is differentially regulated at the level of chromatin structure and non-coding transcription by alternate mechanism at distinct developmental stages of hematopoiesis
    • Hoogenkamp,M., Krysinska,H., Ingram,R., Huang,G., Barlow,R., Clarke,D., Ebralidze,A., Zhang,P., Tagoh,H., Cockerill,P.N. et al. (2007) The Pu.1 locus is differentially regulated at the level of chromatin structure and non-coding transcription by alternate mechanism at distinct developmental stages of hematopoiesis. Mol. Cell Biol., 27, 7425-7438.
    • (2007) Mol. Cell Biol , vol.27 , pp. 7425-7438
    • Hoogenkamp, M.1    Krysinska, H.2    Ingram, R.3    Huang, G.4    Barlow, R.5    Clarke, D.6    Ebralidze, A.7    Zhang, P.8    Tagoh, H.9    Cockerill, P.N.10


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.