메뉴 건너뛰기




Volumn 261, Issue 3, 2009, Pages 441-448

Tuning cell differentiation patterns and single cell dynamics by regulating proteins' functionalities in a toggle switch

Author keywords

Cell differentiation; Functional protein; Functionality regulation; Non functional protein; Toggle switch

Indexed keywords

DNA; RNA; TRANSCRIPTION FACTOR;

EID: 70350044505     PISSN: 00225193     EISSN: 10958541     Source Type: Journal    
DOI: 10.1016/j.jtbi.2009.08.024     Document Type: Article
Times cited : (5)

References (52)
  • 1
    • 0017044290 scopus 로고
    • Selective disadvantage of non-functional protein synthesis in Escherichia coli
    • Andrews K.J., and Hegeman G.D. Selective disadvantage of non-functional protein synthesis in Escherichia coli. J. Mol. Evol. 8 (1976) 317-328
    • (1976) J. Mol. Evol. , vol.8 , pp. 317-328
    • Andrews, K.J.1    Hegeman, G.D.2
  • 2
    • 0034031250 scopus 로고    scopus 로고
    • Signaling to p53: breaking the posttranslational modification code
    • Appella E., and Anderson C.W. Signaling to p53: breaking the posttranslational modification code. Pathol. Biol. 48 (2000) 227-245
    • (2000) Pathol. Biol. , vol.48 , pp. 227-245
    • Appella, E.1    Anderson, C.W.2
  • 3
    • 0031879114 scopus 로고    scopus 로고
    • Stochastic kinetic analysis of developmental pathway bifurcation in phage λ infected Escherichia coli cells
    • Arkin A., Ross J., and McAdams H. Stochastic kinetic analysis of developmental pathway bifurcation in phage λ infected Escherichia coli cells. Genetics 149 (1998) 1633-1648
    • (1998) Genetics , vol.149 , pp. 1633-1648
    • Arkin, A.1    Ross, J.2    McAdams, H.3
  • 4
    • 0033020147 scopus 로고    scopus 로고
    • Regulation of p53 function and stability by phosphorylation
    • Ashcroft M., Kubbutat M., and Vousden K. Regulation of p53 function and stability by phosphorylation. Mol. Cell Biol. 19 (1999) 1751-1758
    • (1999) Mol. Cell Biol. , vol.19 , pp. 1751-1758
    • Ashcroft, M.1    Kubbutat, M.2    Vousden, K.3
  • 5
    • 0029670589 scopus 로고    scopus 로고
    • p53 in signalling checkpoint arrest or apoptosis
    • Bates S., and Vousden K. p53 in signalling checkpoint arrest or apoptosis. Curr. Opin. Genet. Dev. 6 (1996) 1-7
    • (1996) Curr. Opin. Genet. Dev. , vol.6 , pp. 1-7
    • Bates, S.1    Vousden, K.2
  • 6
    • 17144456808 scopus 로고    scopus 로고
    • Positive feedback in eukaryotic gene networks: cell differentiation by graded to binary response conversion
    • Becskei A., Seraphin B., and Serrano L. Positive feedback in eukaryotic gene networks: cell differentiation by graded to binary response conversion. EMBO J. 20 (2001) 2528-2535
    • (2001) EMBO J. , vol.20 , pp. 2528-2535
    • Becskei, A.1    Seraphin, B.2    Serrano, L.3
  • 7
    • 33845669025 scopus 로고    scopus 로고
    • Many expressed genes in bacteria and yeast are transcribed only once per cell cycle
    • Bon M., McGowan S., and Cook P. Many expressed genes in bacteria and yeast are transcribed only once per cell cycle. FASEB J. 20 (2006) 1721-1723
    • (2006) FASEB J. , vol.20 , pp. 1721-1723
    • Bon, M.1    McGowan, S.2    Cook, P.3
  • 9
    • 33645097646 scopus 로고    scopus 로고
    • Multistable and multistep dynamics in neutrophil differentiation
    • Chang H.H., et al. Multistable and multistep dynamics in neutrophil differentiation. BMC Cell Biol. 7 (2006) 11
    • (2006) BMC Cell Biol. , vol.7 , pp. 11
    • Chang, H.H.1
  • 10
    • 44349162752 scopus 로고    scopus 로고
    • Transcriptome-wide noise controls lineage choice in mammalian progenitor cells
    • Chang H.H., Hemberg M., Barahona M., Ingber D.E., and Huang S. Transcriptome-wide noise controls lineage choice in mammalian progenitor cells. Nature 453 (2008) 544-547
    • (2008) Nature , vol.453 , pp. 544-547
    • Chang, H.H.1    Hemberg, M.2    Barahona, M.3    Ingber, D.E.4    Huang, S.5
  • 11
    • 0035339092 scopus 로고    scopus 로고
    • Negative regulation of Gcn4 and Msn2 transcription factors by Srb10 cyclin-dependent kinase
    • Chi Y., et al. Negative regulation of Gcn4 and Msn2 transcription factors by Srb10 cyclin-dependent kinase. Genes Dev. 15 (2001) 1078-1092
    • (2001) Genes Dev. , vol.15 , pp. 1078-1092
    • Chi, Y.1
  • 13
    • 0001322945 scopus 로고    scopus 로고
    • Translation initiation
    • ASM Press, Washington, DC
    • Draper D.E. Translation initiation. Escherichia coli and Salmonella (1996), ASM Press, Washington, DC 902-908
    • (1996) Escherichia coli and Salmonella , pp. 902-908
    • Draper, D.E.1
  • 14
  • 15
    • 0034688174 scopus 로고    scopus 로고
    • Construction of a genetic toggle switch in Escherichia coli
    • Gardner T., Cantor C., and Collins J.J. Construction of a genetic toggle switch in Escherichia coli. Nature 403 (2000) 339-342
    • (2000) Nature , vol.403 , pp. 339-342
    • Gardner, T.1    Cantor, C.2    Collins, J.J.3
  • 16
    • 33645429016 scopus 로고
    • Exact stochastic simulation of coupled chemical reactions
    • Gillespie D.T. Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem. 81 (1977) 2340-2361
    • (1977) J. Phys. Chem. , vol.81 , pp. 2340-2361
    • Gillespie, D.T.1
  • 17
    • 28944434119 scopus 로고    scopus 로고
    • Real-time kinetics of gene activity in individual bacteria
    • Golding I., Paulsson J., Zawilski S., and Cox E. Real-time kinetics of gene activity in individual bacteria. Cell 123 (2005) 1025-1036
    • (2005) Cell , vol.123 , pp. 1025-1036
    • Golding, I.1    Paulsson, J.2    Zawilski, S.3    Cox, E.4
  • 18
    • 51149097760 scopus 로고    scopus 로고
    • Shadow enhancers as a source of evolutionary novelty
    • Hong J., Hendrix D., and Levine M.S. Shadow enhancers as a source of evolutionary novelty. Science 321 (2003) 1314
    • (2003) Science , vol.321 , pp. 1314
    • Hong, J.1    Hendrix, D.2    Levine, M.S.3
  • 19
    • 0036901003 scopus 로고    scopus 로고
    • Multisite phosphorylation provides sophisticated regulation of transcription factors
    • Holmberg C.I., Tran S.E.F., Eriksson J.E., and Sistonen L. Multisite phosphorylation provides sophisticated regulation of transcription factors. Trends Biochem. Sci. 27 (2002) 619-627
    • (2002) Trends Biochem. Sci. , vol.27 , pp. 619-627
    • Holmberg, C.I.1    Tran, S.E.F.2    Eriksson, J.E.3    Sistonen, L.4
  • 20
    • 18144408736 scopus 로고    scopus 로고
    • Cell fates as a high-dimensional attractor states of a complex gene regulatory network
    • Huang S., Eichler G., Bar-Yam Y., and Ingber D. Cell fates as a high-dimensional attractor states of a complex gene regulatory network. Phys. Rev. Lett. 94 (2005) 128701
    • (2005) Phys. Rev. Lett. , vol.94 , pp. 128701
    • Huang, S.1    Eichler, G.2    Bar-Yam, Y.3    Ingber, D.4
  • 21
    • 19544379881 scopus 로고    scopus 로고
    • Stochasticity in gene expression: from theories to phenotypes
    • Kaern M., Elston T., Blake W., and Collins J.J. Stochasticity in gene expression: from theories to phenotypes. Nat. Rev. Genet. 6 (2005) 451-464
    • (2005) Nat. Rev. Genet. , vol.6 , pp. 451-464
    • Kaern, M.1    Elston, T.2    Blake, W.3    Collins, J.J.4
  • 22
    • 0017389047 scopus 로고
    • Transcription and translation initiation frequencies of the Escherichia coli lac operon
    • Kennell D., and Riezman H. Transcription and translation initiation frequencies of the Escherichia coli lac operon. J. Mol. Biol. 114 (1977) 1-21
    • (1977) J. Mol. Biol. , vol.114 , pp. 1-21
    • Kennell, D.1    Riezman, H.2
  • 23
    • 55549113874 scopus 로고    scopus 로고
    • A quantitative model of transcription factor-activated gene expression
    • Kim H.D., and O'Shea E.K. A quantitative model of transcription factor-activated gene expression. Nat. Struct. Mol. Biol. 15 (2008) 1192-1198
    • (2008) Nat. Struct. Mol. Biol. , vol.15 , pp. 1192-1198
    • Kim, H.D.1    O'Shea, E.K.2
  • 24
    • 0030988941 scopus 로고    scopus 로고
    • Repression of the heat shock factor 1 transcriptional activation domain is modulated by constitutive phosphorylation
    • Kline M.P., and Morimoto R.I. Repression of the heat shock factor 1 transcriptional activation domain is modulated by constitutive phosphorylation. Mol. Cell. Biol. 17 (1997) 2107-2115
    • (1997) Mol. Cell. Biol. , vol.17 , pp. 2107-2115
    • Kline, M.P.1    Morimoto, R.I.2
  • 25
    • 0032213906 scopus 로고    scopus 로고
    • A recombinant Escherichia coli sensor strain for the detection of tetracyclines
    • Korpela M., Kurittu J., Karvinen J., and Karp M. A recombinant Escherichia coli sensor strain for the detection of tetracyclines. Anal. Chem. 70 (1998) 4457-4462
    • (1998) Anal. Chem. , vol.70 , pp. 4457-4462
    • Korpela, M.1    Kurittu, J.2    Karvinen, J.3    Karp, M.4
  • 26
    • 0041677612 scopus 로고    scopus 로고
    • Autoinhibition with transcriptional delay: a simple mechanism for the zebra fish somitogenesis oscillator
    • Lewis J. Autoinhibition with transcriptional delay: a simple mechanism for the zebra fish somitogenesis oscillator. Curr. Biol. 13 16 (2003) 1398-1408
    • (2003) Curr. Biol. , vol.13 , Issue.16 , pp. 1398-1408
    • Lewis, J.1
  • 27
    • 0035883859 scopus 로고    scopus 로고
    • Dissecting the functional program of Escherichia coli promoters: the combined mode of action of Lac repressor and AraC activator
    • Lutz R., Lozinski T., Ellinger T., and Bujard H. Dissecting the functional program of Escherichia coli promoters: the combined mode of action of Lac repressor and AraC activator. Nucleic Acids Res. 29 (2001) 3873-3881
    • (2001) Nucleic Acids Res. , vol.29 , pp. 3873-3881
    • Lutz, R.1    Lozinski, T.2    Ellinger, T.3    Bujard, H.4
  • 28
    • 0035971436 scopus 로고    scopus 로고
    • Partners in transcription: NFAT and AP-1
    • Macian F., et al. Partners in transcription: NFAT and AP-1. Oncogene 20 (2001) 2476-2489
    • (2001) Oncogene , vol.20 , pp. 2476-2489
    • Macian, F.1
  • 30
    • 0031029852 scopus 로고    scopus 로고
    • Stochastic mechanisms in gene expression
    • McAdams H.H., and Arkin A. Stochastic mechanisms in gene expression. Proc. Natl. Acad. Sci. USA 94 (1997) 814-819
    • (1997) Proc. Natl. Acad. Sci. USA , vol.94 , pp. 814-819
    • McAdams, H.H.1    Arkin, A.2
  • 31
    • 1842383693 scopus 로고
    • Rate-limiting steps in RNA chain initiation
    • McClure W.R. Rate-limiting steps in RNA chain initiation. Proc. Natl. Acad. Sci. USA 77 (1980) 5634-5638
    • (1980) Proc. Natl. Acad. Sci. USA , vol.77 , pp. 5634-5638
    • McClure, W.R.1
  • 33
    • 73049167504 scopus 로고
    • Teleonomic mechanisms in cellular metabolism, growth, and differentiation
    • Monod J., and Jacob F. Teleonomic mechanisms in cellular metabolism, growth, and differentiation. Cold Spring Harb. Symp. Quant. Biol. 26 (1961) 389-401
    • (1961) Cold Spring Harb. Symp. Quant. Biol. , vol.26 , pp. 389-401
    • Monod, J.1    Jacob, F.2
  • 34
    • 0014945080 scopus 로고
    • Immunity phase shift in defective lysogens: nonmutational hereditary change in early regulation of λ-phage
    • Neubauerz Z., and Calef E. Immunity phase shift in defective lysogens: nonmutational hereditary change in early regulation of λ-phage. J. Mol. Biol. 51 (1970) 1-13
    • (1970) J. Mol. Biol. , vol.51 , pp. 1-13
    • Neubauerz, Z.1    Calef, E.2
  • 36
    • 20444504753 scopus 로고    scopus 로고
    • Structural and functional properties of CCN proteins
    • Rachfal A., and Brigstock D. Structural and functional properties of CCN proteins. Vitam. Horm. 70 (2005) 69-103
    • (2005) Vitam. Horm. , vol.70 , pp. 69-103
    • Rachfal, A.1    Brigstock, D.2
  • 37
    • 25444468618 scopus 로고    scopus 로고
    • Noise in gene expression: origins, consequences, and control
    • Raser J.M., and O'Shea E.K. Noise in gene expression: origins, consequences, and control. Science 309 (2005) 2010-2013
    • (2005) Science , vol.309 , pp. 2010-2013
    • Raser, J.M.1    O'Shea, E.K.2
  • 39
    • 57549084860 scopus 로고    scopus 로고
    • Dynamics and evolution of stochastic bistable gene networks with sensing in fluctuating environments
    • Ribeiro A.S. Dynamics and evolution of stochastic bistable gene networks with sensing in fluctuating environments. Phys. Rev. E 78 (2008) 061902
    • (2008) Phys. Rev. E , vol.78 , pp. 061902
    • Ribeiro, A.S.1
  • 40
    • 67949123162 scopus 로고    scopus 로고
    • Variability of the distribution of differentiation pathway choices regulated by a multipotent delayed stochastic switch
    • Ribeiro A.S., Dai A.S., and Yli-Harja O. Variability of the distribution of differentiation pathway choices regulated by a multipotent delayed stochastic switch. J. Theor. Biol. 260 1 (2009) 66-76
    • (2009) J. Theor. Biol. , vol.260 , Issue.1 , pp. 66-76
    • Ribeiro, A.S.1    Dai, A.S.2    Yli-Harja, O.3
  • 41
    • 34447548696 scopus 로고    scopus 로고
    • Noisy attractors and ergodic sets in models of gene regulatory networks
    • Ribeiro A.S., and Kauffman S.A. Noisy attractors and ergodic sets in models of gene regulatory networks. J. Theor. Biol. 247 (2007) 743-755
    • (2007) J. Theor. Biol. , vol.247 , pp. 743-755
    • Ribeiro, A.S.1    Kauffman, S.A.2
  • 42
    • 36249008660 scopus 로고    scopus 로고
    • Dynamics of a two-dimensional model of cell tissues with coupled stochastic gene networks
    • Ribeiro A.S. Dynamics of a two-dimensional model of cell tissues with coupled stochastic gene networks. Phys. Rev. E 76 (2007) 051915
    • (2007) Phys. Rev. E , vol.76 , pp. 051915
    • Ribeiro, A.S.1
  • 43
    • 34147106039 scopus 로고    scopus 로고
    • SGN Sim, a stochastic genetic networks simulator
    • Ribeiro A.S., and Lloyd-Price J. SGN Sim, a stochastic genetic networks simulator. Bioinformatics 23 (2007) 777-779
    • (2007) Bioinformatics , vol.23 , pp. 777-779
    • Ribeiro, A.S.1    Lloyd-Price, J.2
  • 44
    • 33845369407 scopus 로고    scopus 로고
    • A general modelling strategy for gene regulatory networks with stochastic dynamics
    • Ribeiro A.S., Zhu R., and Kauffman S.A. A general modelling strategy for gene regulatory networks with stochastic dynamics. J. Comput. Biol. 13 (2006) 1630-1639
    • (2006) J. Comput. Biol. , vol.13 , pp. 1630-1639
    • Ribeiro, A.S.1    Zhu, R.2    Kauffman, S.A.3
  • 45
    • 34247550417 scopus 로고    scopus 로고
    • Validation of an algorithm for delay stochastic simulation of transcription and translation in prokaryotic gene expression
    • Roussel M., and Zhu R. Validation of an algorithm for delay stochastic simulation of transcription and translation in prokaryotic gene expression. Phys. Biol. 3 (2006) 274-284
    • (2006) Phys. Biol. , vol.3 , pp. 274-284
    • Roussel, M.1    Zhu, R.2
  • 46
    • 37849021508 scopus 로고    scopus 로고
    • A spatially dynamic cohort of regulatory genes in the endomesodermal gene network of the sea urchin embryo
    • Smith J., Kraemer E., Liu H., Theodoris C., and Davidson E. A spatially dynamic cohort of regulatory genes in the endomesodermal gene network of the sea urchin embryo. Dev. Biol. 313 (2008) 863-875
    • (2008) Dev. Biol. , vol.313 , pp. 863-875
    • Smith, J.1    Kraemer, E.2    Liu, H.3    Theodoris, C.4    Davidson, E.5
  • 47
    • 0001103473 scopus 로고    scopus 로고
    • Kinetics of folding of protein and RNA
    • Thirumalai D., and Woodson S.A. Kinetics of folding of protein and RNA. Acc. Chem. Res. 29 (1996) 433-439
    • (1996) Acc. Chem. Res. , vol.29 , pp. 433-439
    • Thirumalai, D.1    Woodson, S.A.2
  • 48
    • 0029098480 scopus 로고
    • The transcriptional repressor even-skipped interacts directly with TATA-binding protein
    • Um M., Li C., and Manley J.L. The transcriptional repressor even-skipped interacts directly with TATA-binding protein. Mol. Cell. Biol. 15 (1995) 5007-5016
    • (1995) Mol. Cell. Biol. , vol.15 , pp. 5007-5016
    • Um, M.1    Li, C.2    Manley, J.L.3
  • 50
    • 0033845842 scopus 로고    scopus 로고
    • Regulation of transcription factor function by phosphorylation
    • Whitmarsh A.J., and Davis R.J. Regulation of transcription factor function by phosphorylation. Cell. Mol. Life Sci. 57 (2000) 1172-1183
    • (2000) Cell. Mol. Life Sci. , vol.57 , pp. 1172-1183
    • Whitmarsh, A.J.1    Davis, R.J.2
  • 51
    • 33645033645 scopus 로고    scopus 로고
    • Probing gene expression in live cells, one protein molecule at a time
    • Yu J., Xiao J., Ren X., Lao K., and Xie X. Probing gene expression in live cells, one protein molecule at a time. Science 311 (2006) 1600-1603
    • (2006) Science , vol.311 , pp. 1600-1603
    • Yu, J.1    Xiao, J.2    Ren, X.3    Lao, K.4    Xie, X.5
  • 52
    • 34248147640 scopus 로고    scopus 로고
    • Studying genetic regulatory networks at the molecular level: delayed reaction stochastic models
    • Zhu R., Ribeiro A.S., Salahub D., and Kauffman S.A. Studying genetic regulatory networks at the molecular level: delayed reaction stochastic models. J. Theor. Biol. 246 (2007) 725-745
    • (2007) J. Theor. Biol. , vol.246 , pp. 725-745
    • Zhu, R.1    Ribeiro, A.S.2    Salahub, D.3    Kauffman, S.A.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.