메뉴 건너뛰기




Volumn 466, Issue 1-2, 2010, Pages 43-48

Relaxed selection against accidental binding of transcription factors with conserved chromatin contexts

Author keywords

Binding motif; Chromatin; Evolution; Natural selection; Nucleosome; Transcription factor binding

Indexed keywords

TRANSCRIPTION FACTOR; CHROMATIN; NUCLEOSOME;

EID: 77956229306     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2010.07.002     Document Type: Article
Times cited : (10)

References (28)
  • 1
    • 34047111213 scopus 로고    scopus 로고
    • Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome
    • Albert I., et al. Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome. Nature 2007, 446:572-576.
    • (2007) Nature , vol.446 , pp. 572-576
    • Albert, I.1
  • 3
    • 47649094814 scopus 로고    scopus 로고
    • Inferring natural selection on fine-scale chromatin organization in yeast
    • Babbitt G.A., Kim Y. Inferring natural selection on fine-scale chromatin organization in yeast. Mol. Biol. Evol. 2008, 25(8):1714-1727.
    • (2008) Mol. Biol. Evol. , vol.25 , Issue.8 , pp. 1714-1727
    • Babbitt, G.A.1    Kim, Y.2
  • 5
    • 33745737494 scopus 로고    scopus 로고
    • Myc-binding recognition in the human genome is determined by chromatin context
    • Guccione E., et al. Myc-binding recognition in the human genome is determined by chromatin context. Nat. Cell Biol. 2006, 8(7):764-770.
    • (2006) Nat. Cell Biol. , vol.8 , Issue.7 , pp. 764-770
    • Guccione, E.1
  • 6
    • 0038586484 scopus 로고    scopus 로고
    • The effects of selection against spurious transcription factor binding sites
    • Hahn M.W., Stajich J.E., Wray G.A. The effects of selection against spurious transcription factor binding sites. Mol. Biol. Evol. 2003, 20(6):901-906.
    • (2003) Mol. Biol. Evol. , vol.20 , Issue.6 , pp. 901-906
    • Hahn, M.W.1    Stajich, J.E.2    Wray, G.A.3
  • 7
    • 77950262538 scopus 로고    scopus 로고
    • Nucleosome dynamics define transcriptional enhancers
    • He H.H., et al. Nucleosome dynamics define transcriptional enhancers. Nat. Genet. 2010, 42(4):343-347.
    • (2010) Nat. Genet. , vol.42 , Issue.4 , pp. 343-347
    • He, H.H.1
  • 8
    • 0033057479 scopus 로고    scopus 로고
    • Periodical distribution of transcription factor sites in promoter regions and connection with chromatin structure
    • Ioshikhes I., Trifonov E.N., Zhang M.Q. Periodical distribution of transcription factor sites in promoter regions and connection with chromatin structure. Proc. Natl Acad. Sci. USA 1999, 96(6):2891-2895.
    • (1999) Proc. Natl Acad. Sci. USA , vol.96 , Issue.6 , pp. 2891-2895
    • Ioshikhes, I.1    Trifonov, E.N.2    Zhang, M.Q.3
  • 9
    • 33749153628 scopus 로고    scopus 로고
    • Nucleosome positions predicted through comparative genomics
    • Ioshikhes I.P., Albert I., Zanton S.J., Pugh B.F. Nucleosome positions predicted through comparative genomics. Nat. Genet. 2006, 38:1210-1215.
    • (2006) Nat. Genet. , vol.38 , pp. 1210-1215
    • Ioshikhes, I.P.1    Albert, I.2    Zanton, S.J.3    Pugh, B.F.4
  • 10
    • 62649085538 scopus 로고    scopus 로고
    • The DNA-encoded nucleosome organization of a eukaryotic genome
    • Kaplan N., et al. The DNA-encoded nucleosome organization of a eukaryotic genome. Nature 2009, 458:362-366.
    • (2009) Nature , vol.458 , pp. 362-366
    • Kaplan, N.1
  • 11
    • 0026600016 scopus 로고
    • Statistical analyses of counts and distributions of restriction sites in DNA sequences
    • Karlin S., Burge C., Cambell A.M. Statistical analyses of counts and distributions of restriction sites in DNA sequences. Nucleic Acids Res. 1992, 20(6):1363-1370.
    • (1992) Nucleic Acids Res. , vol.20 , Issue.6 , pp. 1363-1370
    • Karlin, S.1    Burge, C.2    Cambell, A.M.3
  • 12
    • 0038349948 scopus 로고    scopus 로고
    • Sequencing and comparison of yeast species to identify genes and regulatory elements
    • Kellis M., Patterson N., Endrizzi M., Birren B., Lander E.S. Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 2003, 423:241-254.
    • (2003) Nature , vol.423 , pp. 241-254
    • Kellis, M.1    Patterson, N.2    Endrizzi, M.3    Birren, B.4    Lander, E.S.5
  • 13
    • 43449096915 scopus 로고    scopus 로고
    • Chromatin decouples promoter threshold from dynamic range
    • Lam F.H., Steger D.J., O'Shea E.K. Chromatin decouples promoter threshold from dynamic range. Nature 2008, 453:246-251.
    • (2008) Nature , vol.453 , pp. 246-251
    • Lam, F.H.1    Steger, D.J.2    O'Shea, E.K.3
  • 14
    • 38349144394 scopus 로고    scopus 로고
    • Understanding the molecular machinery of genetics through #D structures
    • Laskowski R.A., Thornton J.M. Understanding the molecular machinery of genetics through #D structures. Nat. Rev. Genet. 2008, 9:141-151.
    • (2008) Nat. Rev. Genet. , vol.9 , pp. 141-151
    • Laskowski, R.A.1    Thornton, J.M.2
  • 15
    • 34748826166 scopus 로고    scopus 로고
    • A high resolution atlas of nucleosome occupancy in yeast
    • Lee W., et al. A high resolution atlas of nucleosome occupancy in yeast. Nat. Genet. 2007, 39(10):1235-1244.
    • (2007) Nat. Genet. , vol.39 , Issue.10 , pp. 1235-1244
    • Lee, W.1
  • 16
    • 33947309924 scopus 로고    scopus 로고
    • Probasin promoter assembles into a strongly positioned nucleosome that permits androgen receptor binding
    • Maffey A.H., et al. Probasin promoter assembles into a strongly positioned nucleosome that permits androgen receptor binding. Mol. Cell. Endocrinol. 2007, 268:10-19.
    • (2007) Mol. Cell. Endocrinol. , vol.268 , pp. 10-19
    • Maffey, A.H.1
  • 17
    • 46449112319 scopus 로고    scopus 로고
    • A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
    • Mavrich T.N., et al. A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome. Genome Res. 2008, 18:1073-1083.
    • (2008) Genome Res. , vol.18 , pp. 1073-1083
    • Mavrich, T.N.1
  • 18
    • 36949023082 scopus 로고    scopus 로고
    • A nucleosome-guided map of transcriptionfactor binding sites in yeast
    • e215
    • Narlikar L., Gordan R., Hartemink A.J. A nucleosome-guided map of transcriptionfactor binding sites in yeast. PLoS Comput. Biol. 2007, 3(11):2199-2208. e215.
    • (2007) PLoS Comput. Biol. , vol.3 , Issue.11 , pp. 2199-2208
    • Narlikar, L.1    Gordan, R.2    Hartemink, A.J.3
  • 19
    • 50049127216 scopus 로고    scopus 로고
    • Chromatin context dominates estrogen regulation of pS2 gene expression
    • Oduro A.K., Fritsch M.K., Murdoch F.E. Chromatin context dominates estrogen regulation of pS2 gene expression. Exp. Cell Res. 2008, 314:2796-2810.
    • (2008) Exp. Cell Res. , vol.314 , pp. 2796-2810
    • Oduro, A.K.1    Fritsch, M.K.2    Murdoch, F.E.3
  • 20
    • 0242362735 scopus 로고    scopus 로고
    • Genome-wide prediction of Polycomb/Trithorax response elements in Drosophila melanogaster
    • Ringrose L., Rehmsmeier M., Dura J.M., Paro R. Genome-wide prediction of Polycomb/Trithorax response elements in Drosophila melanogaster. Dev. Cell 2003, 5:759-771.
    • (2003) Dev. Cell , vol.5 , pp. 759-771
    • Ringrose, L.1    Rehmsmeier, M.2    Dura, J.M.3    Paro, R.4
  • 22
    • 33747500567 scopus 로고    scopus 로고
    • A genomic code for nucleosome positioning
    • Segal E., et al. A genomic code for nucleosome positioning. Nature 2006, 442:772-778.
    • (2006) Nature , vol.442 , pp. 772-778
    • Segal, E.1
  • 23
    • 0035477896 scopus 로고    scopus 로고
    • Core promoters: active contributors to combinatorial gene regulation
    • Smale S.T. Core promoters: active contributors to combinatorial gene regulation. Genes Dev. 2001, 15:2503-2508.
    • (2001) Genes Dev. , vol.15 , pp. 2503-2508
    • Smale, S.T.1
  • 24
    • 33644873683 scopus 로고    scopus 로고
    • The YEASTRACT database: a tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae
    • D447-database issue
    • Teixeira M.C., et al. The YEASTRACT database: a tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae. Nucleic Acids Res. 2006, 34. D447-database issue.
    • (2006) Nucleic Acids Res. , vol.34
    • Teixeira, M.C.1
  • 26
    • 34447644439 scopus 로고    scopus 로고
    • A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning
    • Tolstorukov M.Y., Colasanti A.V., McCandlish D.M., Olson W.K., Zhurkin V.B. A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning. J. Mol. Biol. 2007, 371:725-738.
    • (2007) J. Mol. Biol. , vol.371 , pp. 725-738
    • Tolstorukov, M.Y.1    Colasanti, A.V.2    McCandlish, D.M.3    Olson, W.K.4    Zhurkin, V.B.5
  • 28
    • 0042697343 scopus 로고    scopus 로고
    • The evolution of transcriptional regulation in eukaryotes
    • Wray G.A., et al. The evolution of transcriptional regulation in eukaryotes. Mol. Biol. Evol. 2003, 20:1377-1419.
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 1377-1419
    • Wray, G.A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.