메뉴 건너뛰기




Volumn 44, Issue 8, 2016, Pages 3750-3762

Polymorphic tandem repeats within gene promoters act as modifiers of gene expression and DNA methylation in humans

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBONUCLEASE I; DNA; TRANSCRIPTION FACTOR;

EID: 84966372525     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkw219     Document Type: Article
Times cited : (99)

References (55)
  • 4
    • 0037224621 scopus 로고    scopus 로고
    • Direct estimates of human per nucleotide mutation rates at 20 loci causing Mendelian diseases
    • Kondrashov,A.S. (2003) Direct estimates of human per nucleotide mutation rates at 20 loci causing Mendelian diseases. Hum. Mutat., 21, 12-27.
    • (2003) Hum. Mutat. , vol.21 , pp. 12-27
    • Kondrashov, A.S.1
  • 6
    • 78149432728 scopus 로고    scopus 로고
    • Variable tandem repeats accelerate evolution of coding and regulatory sequences
    • Gemayel,R., Vinces,M.D., Legendre,M. and Verstrepen,K.J. (2010) Variable tandem repeats accelerate evolution of coding and regulatory sequences. Annu. Rev. Genet., 44, 445-477.
    • (2010) Annu. Rev. Genet. , vol.44 , pp. 445-477
    • Gemayel, R.1    Vinces, M.D.2    Legendre, M.3    Verstrepen, K.J.4
  • 8
    • 0036510121 scopus 로고    scopus 로고
    • A polymorphic microsatellite that mediates induction of PIG3 by p53
    • Contente,A., Dittmer,A., Koch,M.C., Roth,J. and Dobbelstein,M. (2002) A polymorphic microsatellite that mediates induction of PIG3 by p53. Nat. Genet., 30, 315-320.
    • (2002) Nat. Genet. , vol.30 , pp. 315-320
    • Contente, A.1    Dittmer, A.2    Koch, M.C.3    Roth, J.4    Dobbelstein, M.5
  • 9
    • 0037710312 scopus 로고    scopus 로고
    • Evaluation of genetic variation and association in the matrix metalloproteinase 9 (MMP9) gene in ESRD patients
    • Hirakawa,S., Lange,E.M., Colicigno,C.J., Freedman,B.I., Rich,S.S. and Bowden,D.W. (2003) Evaluation of genetic variation and association in the matrix metalloproteinase 9 (MMP9) gene in ESRD patients. Am. J. Kidney Dis., 42, 133-142.
    • (2003) Am. J. Kidney Dis. , vol.42 , pp. 133-142
    • Hirakawa, S.1    Lange, E.M.2    Colicigno, C.J.3    Freedman, B.I.4    Rich, S.S.5    Bowden, D.W.6
  • 11
    • 84907572304 scopus 로고    scopus 로고
    • The tandem repeats enabling reversible switching between the two phases of β-lactamase substrate spectrum
    • Yi,H., Song,H., Hwang,J., Kim,K., Nierman,W.C. and Kim,H.S. (2014) The tandem repeats enabling reversible switching between the two phases of β-lactamase substrate spectrum. PLoS Genet., 10, e1004640.
    • (2014) PLoS Genet. , vol.10
    • Yi, H.1    Song, H.2    Hwang, J.3    Kim, K.4    Nierman, W.C.5    Kim, H.S.6
  • 12
    • 25144494777 scopus 로고    scopus 로고
    • Intragenic tandem repeats generate functional variability
    • Verstrepen,K.J., Jansen,A., Lewitter,F. and Fink,G.R. (2005) Intragenic tandem repeats generate functional variability. Nat. Genet., 37, 986-990.
    • (2005) Nat. Genet. , vol.37 , pp. 986-990
    • Verstrepen, K.J.1    Jansen, A.2    Lewitter, F.3    Fink, G.R.4
  • 13
    • 11144230088 scopus 로고    scopus 로고
    • Molecular origins of rapid and continuous morphological evolution
    • Fondon,J.W. and Garner,H.R. (2004) Molecular origins of rapid and continuous morphological evolution. Proc. Natl. Acad. Sci. U.S.A., 101, 18058-18063.
    • (2004) Proc. Natl. Acad. Sci. U.S.A. , vol.101 , pp. 18058-18063
    • Fondon, J.W.1    Garner, H.R.2
  • 18
    • 84858022527 scopus 로고    scopus 로고
    • Analysis of microsatellite variation in Drosophila melanogaster with population-scale genome sequencing
    • Fondon,J.W., Martin,A., Richards,S., Gibbs,R.A. and Mittelman,D. (2012) Analysis of microsatellite variation in Drosophila melanogaster with population-scale genome sequencing. PLoS One, 7, e33036.
    • (2012) PLoS One , vol.7
    • Fondon, J.W.1    Martin, A.2    Richards, S.3    Gibbs, R.A.4    Mittelman, D.5
  • 20
    • 84861861291 scopus 로고    scopus 로고
    • LobSTR: A short tandem repeat profiler for personal genomes
    • Gymrek,M., Golan,D., Rosset,S. and Erlich,Y. (2012) lobSTR: A short tandem repeat profiler for personal genomes. Genome Res., 22, 1154-1162.
    • (2012) Genome Res. , vol.22 , pp. 1154-1162
    • Gymrek, M.1    Golan, D.2    Rosset, S.3    Erlich, Y.4
  • 21
    • 84871774158 scopus 로고    scopus 로고
    • Accurate human microsatellite genotypes from high-throughput resequencing data using informed error profiles
    • Highnam,G., Franck,C., Martin,A., Stephens,C., Puthige,A. and Mittelman,D. (2013) Accurate human microsatellite genotypes from high-throughput resequencing data using informed error profiles. Nucleic Acids Res., 41, e32.
    • (2013) Nucleic Acids Res. , vol.41 , pp. e32
    • Highnam, G.1    Franck, C.2    Martin, A.3    Stephens, C.4    Puthige, A.5    Mittelman, D.6
  • 22
    • 84881617235 scopus 로고    scopus 로고
    • Rapid multiplexed genotyping of simple tandem repeats using capture and high-throughput sequencing
    • Guilmatre,A., Highnam,G., Borel,C., Mittelman,D. and Sharp,A.J. (2013) Rapid multiplexed genotyping of simple tandem repeats using capture and high-throughput sequencing. Hum. Mutat., 34, 1304-1311.
    • (2013) Hum. Mutat. , vol.34 , pp. 1304-1311
    • Guilmatre, A.1    Highnam, G.2    Borel, C.3    Mittelman, D.4    Sharp, A.J.5
  • 25
    • 84903441707 scopus 로고    scopus 로고
    • Digital genotyping of macrosatellites and multicopy genes reveals novel biological functions associated with copy number variation of large tandem repeats
    • Brahmachary,M., Guilmatre,A., Quilez,J., Hasson,D., Borel,C., Warburton,P. and Sharp,A.J. (2014) Digital genotyping of macrosatellites and multicopy genes reveals novel biological functions associated with copy number variation of large tandem repeats. PLoS Genet., 10, e1004418.
    • (2014) PLoS Genet. , vol.10
    • Brahmachary, M.1    Guilmatre, A.2    Quilez, J.3    Hasson, D.4    Borel, C.5    Warburton, P.6    Sharp, A.J.7
  • 26
    • 84922708753 scopus 로고    scopus 로고
    • Resolving complex tandem repeats with long reads
    • Ummat,A. and Bashir,A. (2014) Resolving complex tandem repeats with long reads. Bioinformatics, 30, 3491-3498.
    • (2014) Bioinformatics , vol.30 , pp. 3491-3498
    • Ummat, A.1    Bashir, A.2
  • 27
    • 84929657644 scopus 로고    scopus 로고
    • MIPSTR: A method for multiplex genotyping of germline and somatic STR variation across many individuals
    • Carlson,K.D., Sudmant,P.H., Press,M.O., Eichler,E.E., Shendure,J. and Queitsch,C. (2015) MIPSTR: a method for multiplex genotyping of germline and somatic STR variation across many individuals. Genome Res., 25, 750-761.
    • (2015) Genome Res. , vol.25 , pp. 750-761
    • Carlson, K.D.1    Sudmant, P.H.2    Press, M.O.3    Eichler, E.E.4    Shendure, J.5    Queitsch, C.6
  • 33
    • 0033555906 scopus 로고    scopus 로고
    • Tandem repeats finder: A program to analyze DNA sequences
    • Benson,G. (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res., 27, 573-580.
    • (1999) Nucleic Acids Res. , vol.27 , pp. 573-580
    • Benson, G.1
  • 34
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: A flexible suite of utilities for comparing genomic features
    • Quinlan,A.R. and Hall,I.M. (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics, 26, 841-842.
    • (2010) Bioinformatics , vol.26 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 38
    • 77955505742 scopus 로고    scopus 로고
    • A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies
    • Stegle,O., Parts,L., Durbin,R. and Winn,J. (2010) A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies. PLoS Comput. Biol., 6, e1000770.
    • (2010) PLoS Comput. Biol. , vol.6
    • Stegle, O.1    Parts, L.2    Durbin, R.3    Winn, J.4
  • 39
    • 84881083007 scopus 로고    scopus 로고
    • Genome-wide variation of cytosine modifications between European and African populations and the implications for complex traits
    • Moen,E.L., Zhang,X., Mu,W., Delaney,S.M., Wing,C., McQuade,J., Myers,J., Godley,L.A., Dolan,M.E. and Zhang,W. (2013) Genome-wide variation of cytosine modifications between European and African populations and the implications for complex traits. Genetics, 194, 987-996.
    • (2013) Genetics , vol.194 , pp. 987-996
    • Moen, E.L.1    Zhang, X.2    Mu, W.3    Delaney, S.M.4    Wing, C.5    McQuade, J.6    Myers, J.7    Godley, L.A.8    Dolan, M.E.9    Zhang, W.10
  • 40
    • 79952266465 scopus 로고    scopus 로고
    • Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data
    • Pique-Regi,R., Degner,J.F., Pai,A.A., Gaffney,D.J., Gilad,Y. and Pritchard,J.K. (2011) Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data. Genome Res., 21, 447-455.
    • (2011) Genome Res. , vol.21 , pp. 447-455
    • Pique-Regi, R.1    Degner, J.F.2    Pai, A.A.3    Gaffney, D.J.4    Gilad, Y.5    Pritchard, J.K.6
  • 42
    • 35348817330 scopus 로고    scopus 로고
    • Rapid and accurate haplotype phasing and missing-data inference for whole-genome association studies by use of localized haplotype clustering
    • Browning,S.R. and Browning,B.L. (2007) Rapid and accurate haplotype phasing and missing-data inference for whole-genome association studies by use of localized haplotype clustering. Am. J. Hum. Genet., 81, 1084-1097.
    • (2007) Am. J. Hum. Genet. , vol.81 , pp. 1084-1097
    • Browning, S.R.1    Browning, B.L.2
  • 46
    • 84867744921 scopus 로고    scopus 로고
    • DNA secondary structures: Stability and function of G-quadruplex structures
    • Bochman,M.L., Paeschke,K. and Zakian,V.A. (2012) DNA secondary structures: stability and function of G-quadruplex structures. Nat. Rev. Genet., 13, 770-780.
    • (2012) Nat. Rev. Genet. , vol.13 , pp. 770-780
    • Bochman, M.L.1    Paeschke, K.2    Zakian, V.A.3
  • 48
    • 84867631962 scopus 로고    scopus 로고
    • Fine-tuning gene networks using simple sequence repeats
    • Egbert,R.G. and Klavins,E. (2012) Fine-tuning gene networks using simple sequence repeats. Proc. Natl. Acad. Sci. U.S.A., 109, 16817-16822.
    • (2012) Proc. Natl. Acad. Sci. U.S.A. , vol.109 , pp. 16817-16822
    • Egbert, R.G.1    Klavins, E.2
  • 49
    • 78649684957 scopus 로고    scopus 로고
    • Genome-wide association between branch point properties and alternative splicing
    • Corvelo,A., Hallegger,M., Smith,C.W.J. and Eyras,E. (2010) Genome-wide association between branch point properties and alternative splicing. PLoS Comput. Biol., 6, e1001016.
    • (2010) PLoS Comput. Biol. , vol.6
    • Corvelo, A.1    Hallegger, M.2    Smith, C.W.J.3    Eyras, E.4
  • 51
    • 0018370487 scopus 로고
    • Helical repeat of DNA in solution
    • Wang,J.C. (1979) Helical repeat of DNA in solution. Proc. Natl. Acad. Sci. U.S.A., 76, 200-203.
    • (1979) Proc. Natl. Acad. Sci. U.S.A. , vol.76 , pp. 200-203
    • Wang, J.C.1
  • 52
    • 0022521842 scopus 로고
    • Cooperative binding of lambda repressors to sites separated by integral turns of the DNA helix
    • Hochschild,A. and Ptashne,M. (1986) Cooperative binding of lambda repressors to sites separated by integral turns of the DNA helix. Cell, 44, 681-687.
    • (1986) Cell , vol.44 , pp. 681-687
    • Hochschild, A.1    Ptashne, M.2
  • 53
    • 66349113764 scopus 로고    scopus 로고
    • Unstable tandem repeats in promoters confer transcriptional evolvability
    • Vinces,M.D., Legendre,M., Caldara,M., Hagihara,M. and Verstrepen,K.J. (2009) Unstable tandem repeats in promoters confer transcriptional evolvability. Science, 324, 1213-1216.
    • (2009) Science , vol.324 , pp. 1213-1216
    • Vinces, M.D.1    Legendre, M.2    Caldara, M.3    Hagihara, M.4    Verstrepen, K.J.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.