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Volumn 3, Issue 5, 2014, Pages 324-331

MicroRNA-based single-gene circuits buffer protein synthesis rates against perturbations

Author keywords

adaptation; feed forward loop; microRNA; noise

Indexed keywords

MESSENGER RNA; MICRORNA; PROTEIN; SMALL INTERFERING RNA; PHOTOPROTEIN; RED FLUORESCENT PROTEIN;

EID: 84900873500     PISSN: None     EISSN: 21615063     Source Type: Journal    
DOI: 10.1021/sb4001867     Document Type: Article
Times cited : (44)

References (46)
  • 1
    • 53549123008 scopus 로고    scopus 로고
    • Nature, nurture, or chance: Stochastic gene expression and its consequences
    • Raj, A. and van Oudenaarden, A. (2008) Nature, nurture, or chance: Stochastic gene expression and its consequences Cell 135, 216-226
    • (2008) Cell , vol.135 , pp. 216-226
    • Raj, A.1    Van Oudenaarden, A.2
  • 3
    • 79952638264 scopus 로고    scopus 로고
    • Cellular decision making and biological noise: From microbes to mammals
    • Balázsi, G., van Oudenaarden, A., and Collins, J. J. (2011) Cellular decision making and biological noise: From microbes to mammals Cell 144, 910-925
    • (2011) Cell , vol.144 , pp. 910-925
    • Balázsi, G.1    Van Oudenaarden, A.2    Collins, J.J.3
  • 5
    • 15544388848 scopus 로고    scopus 로고
    • Noise propagation in gene networks
    • Pedraza, J. M. and van Oudenaarden, A. (2005) Noise propagation in gene networks Science 307, 1965-1969
    • (2005) Science , vol.307 , pp. 1965-1969
    • Pedraza, J.M.1    Van Oudenaarden, A.2
  • 6
    • 60149088848 scopus 로고    scopus 로고
    • Origins and mechanisms of miRNAs and siRNAs
    • Carthew, R. W. and Sontheimer, E. J. (2009) Origins and mechanisms of miRNAs and siRNAs Cell 136, 642-655
    • (2009) Cell , vol.136 , pp. 642-655
    • Carthew, R.W.1    Sontheimer, E.J.2
  • 7
    • 84860324470 scopus 로고    scopus 로고
    • Roles for microRNAs in conferring robustness to biological processes
    • Ebert, M. S. and Sharp, P. A. (2012) Roles for microRNAs in conferring robustness to biological processes Cell 149, 515-524
    • (2012) Cell , vol.149 , pp. 515-524
    • Ebert, M.S.1    Sharp, P.A.2
  • 8
    • 84984765621 scopus 로고    scopus 로고
    • Canalization of development by microRNAs
    • Hornstein, E. and Shomron, N. (2006) Canalization of development by microRNAs Nat. Genet. 38, S20-S24
    • (2006) Nat. Genet. , vol.38
    • Hornstein, E.1    Shomron, N.2
  • 9
    • 84858379476 scopus 로고    scopus 로고
    • MicroRNAs in stress signaling and human disease
    • Mendell, J. T. and Olson, E. N. (2012) MicroRNAs in stress signaling and human disease Cell 148, 1172-1187
    • (2012) Cell , vol.148 , pp. 1172-1187
    • Mendell, J.T.1    Olson, E.N.2
  • 10
    • 64249144494 scopus 로고    scopus 로고
    • A microRNA imparts robustness against environmental fluctuation during development
    • Li, X., Cassidy, J. J., Reinke, C. A., Fischboeck, S., and Carthew, R. W. (2009) A microRNA imparts robustness against environmental fluctuation during development Cell 137, 273-282
    • (2009) Cell , vol.137 , pp. 273-282
    • Li, X.1    Cassidy, J.J.2    Reinke, C.A.3    Fischboeck, S.4    Carthew, R.W.5
  • 11
    • 33747754760 scopus 로고    scopus 로고
    • Lessons from Nature: MicroRNA-based shRNA libraries
    • Chang, K., Elledge, S. J., and Hannon, G. J. (2006) Lessons from Nature: microRNA-based shRNA libraries Nat. Methods 3, 707-714
    • (2006) Nat. Methods , vol.3 , pp. 707-714
    • Chang, K.1    Elledge, S.J.2    Hannon, G.J.3
  • 13
    • 34447505900 scopus 로고    scopus 로고
    • A tunable genetic switch based on RNAi and repressor proteins for regulating gene expression in mammalian cells
    • Deans, T. L., Cantor, C. R., and Collins, J. J. (2007) A tunable genetic switch based on RNAi and repressor proteins for regulating gene expression in mammalian cells Cell 130, 363-372
    • (2007) Cell , vol.130 , pp. 363-372
    • Deans, T.L.1    Cantor, C.R.2    Collins, J.J.3
  • 15
    • 54949106632 scopus 로고    scopus 로고
    • Model-guided design of ligand-regulated RNAi for programmable control of gene expression
    • Beisel, C. L., Bayer, T. S., Hoff, K. G., and Smolke, C. D. (2008) Model-guided design of ligand-regulated RNAi for programmable control of gene expression Mol. Syst. Biol. 4, 224
    • (2008) Mol. Syst. Biol. , vol.4 , pp. 224
    • Beisel, C.L.1    Bayer, T.S.2    Hoff, K.G.3    Smolke, C.D.4
  • 16
    • 80051486871 scopus 로고    scopus 로고
    • Synthetic incoherent feedforward circuits show adaptation to the amount of their genetic template
    • Bleris, L., Xie, Z., Glass, D., Adadey, A., Sontag, E., and Benenson, Y. (2011) Synthetic incoherent feedforward circuits show adaptation to the amount of their genetic template Mol. Syst. Biol. 7, 519
    • (2011) Mol. Syst. Biol. , vol.7 , pp. 519
    • Bleris, L.1    Xie, Z.2    Glass, D.3    Adadey, A.4    Sontag, E.5    Benenson, Y.6
  • 17
    • 80052456127 scopus 로고    scopus 로고
    • Multi-input RNAi-based logic circuit for identification of specific cancer cells
    • Xie, Z., Wroblewska, L., Prochazka, L., Weiss, R., and Benenson, Y. (2011) Multi-input RNAi-based logic circuit for identification of specific cancer cells Science 333, 1307-1311
    • (2011) Science , vol.333 , pp. 1307-1311
    • Xie, Z.1    Wroblewska, L.2    Prochazka, L.3    Weiss, R.4    Benenson, Y.5
  • 18
    • 79952302623 scopus 로고    scopus 로고
    • The role of incoherent microRNA-mediated feedforward loops in noise buffering
    • Osella, M., Bosia, C., Corá, D., and Caselle, M. (2011) The role of incoherent microRNA-mediated feedforward loops in noise buffering PLoS Comp. Biol. 7, e1001101
    • (2011) PLoS Comp. Biol. , vol.7 , pp. 1001101
    • Osella, M.1    Bosia, C.2    Corá, D.3    Caselle, M.4
  • 19
    • 71149099313 scopus 로고    scopus 로고
    • The incoherent feedforward loop can provide fold-change detection in gene regulation
    • Goentoro, L., Shoval, O., Kirschner, M. W., and Alon, U. (2009) The incoherent feedforward loop can provide fold-change detection in gene regulation Mol. Cell 36, 894-899
    • (2009) Mol. Cell , vol.36 , pp. 894-899
    • Goentoro, L.1    Shoval, O.2    Kirschner, M.W.3    Alon, U.4
  • 20
    • 68749118345 scopus 로고    scopus 로고
    • Defining network topologies that can achieve biochemical adaptation
    • Ma, W., Trusina, A., El-Samad, H., Lim, W. A., and Tang, C. (2009) Defining network topologies that can achieve biochemical adaptation Cell 138, 760-773
    • (2009) Cell , vol.138 , pp. 760-773
    • Ma, W.1    Trusina, A.2    El-Samad, H.3    Lim, W.A.4    Tang, C.5
  • 21
    • 77950360497 scopus 로고    scopus 로고
    • Remarks on feedforward circuits, adaptation, and pulse memory
    • Sontag, E. D. (2010) Remarks on feedforward circuits, adaptation, and pulse memory IET Syst. Biol. 4, 39-51
    • (2010) IET Syst. Biol. , vol.4 , pp. 39-51
    • Sontag, E.D.1
  • 23
    • 34547212309 scopus 로고    scopus 로고
    • The MicroRNA miR-124 promotes neuronal differentiation by triggering brain-specific alternative pre-mRNA splicing
    • Makeyev, E. V., Zhang, J., Carrasco, M. A., and Maniatis, T. (2007) The MicroRNA miR-124 promotes neuronal differentiation by triggering brain-specific alternative pre-mRNA splicing Mol. Cell 27, 435-448
    • (2007) Mol. Cell , vol.27 , pp. 435-448
    • Makeyev, E.V.1    Zhang, J.2    Carrasco, M.A.3    Maniatis, T.4
  • 26
    • 0842285841 scopus 로고    scopus 로고
    • Summing up the noise in gene networks
    • Paulsson, J. (2004) Summing up the noise in gene networks Nature 427, 415-418
    • (2004) Nature , vol.427 , pp. 415-418
    • Paulsson, J.1
  • 27
    • 62549083590 scopus 로고    scopus 로고
    • Negative autoregulation linearizes the dose-response and suppresses the heterogeneity of gene expression
    • Nevozhay, D., Adams, R. M., Murphy, K. F., Josic, K., and Balázsi, G. (2009) Negative autoregulation linearizes the dose-response and suppresses the heterogeneity of gene expression Proc. Natl. Acad. Sci. U.S.A. 106, 5123-5128
    • (2009) Proc. Natl. Acad. Sci. U.S.A. , vol.106 , pp. 5123-5128
    • Nevozhay, D.1    Adams, R.M.2    Murphy, K.F.3    Josic, K.4    Balázsi, G.5
  • 29
    • 34548316982 scopus 로고    scopus 로고
    • MicroRNA sponges: Competitive inhibitors of small RNAs in mammalian cells
    • Ebert, M. S., Neilson, J. R., and Sharp, P. A. (2007) MicroRNA sponges: Competitive inhibitors of small RNAs in mammalian cells Nat. Methods 4, 721-726
    • (2007) Nat. Methods , vol.4 , pp. 721-726
    • Ebert, M.S.1    Neilson, J.R.2    Sharp, P.A.3
  • 30
    • 84855323194 scopus 로고    scopus 로고
    • Intronic miR-26b controls neuronal differentiation by repressing its host transcript, ctdsp2
    • Dill, H., Linder, B., Fehr, A., and Fischer, U. (2012) Intronic miR-26b controls neuronal differentiation by repressing its host transcript, ctdsp2 Genes Dev. 26, 25-30
    • (2012) Genes Dev. , vol.26 , pp. 25-30
    • Dill, H.1    Linder, B.2    Fehr, A.3    Fischer, U.4
  • 32
    • 73949116135 scopus 로고    scopus 로고
    • MiR-126 inhibits non-small cell lung cancer cells proliferation by targeting EGFL7
    • Sun, Y., Bai, Y., Zhang, F., Wang, Y., Guo, Y., and Guo, L. (2010) miR-126 inhibits non-small cell lung cancer cells proliferation by targeting EGFL7 Biochem. Biophys. Res. Commun. 391, 1483-1489
    • (2010) Biochem. Biophys. Res. Commun. , vol.391 , pp. 1483-1489
    • Sun, Y.1    Bai, Y.2    Zhang, F.3    Wang, Y.4    Guo, Y.5    Guo, L.6
  • 35
    • 70349334678 scopus 로고    scopus 로고
    • Genome-wide survey of microRNA-transcription factor feed-forward regulatory circuits in human
    • Re, A., Corá, D., Taverna, D., and Caselle, M. (2009) Genome-wide survey of microRNA-transcription factor feed-forward regulatory circuits in human Mol. Biosyst. 5, 854-867
    • (2009) Mol. Biosyst. , vol.5 , pp. 854-867
    • Re, A.1    Corá, D.2    Taverna, D.3    Caselle, M.4
  • 37
    • 84867593042 scopus 로고    scopus 로고
    • MicroRNA degradation and turnover: Regulating the regulators
    • Zhang, Z., Qin, Y. W., Brewer, G., and Jing, Q. (2012) MicroRNA degradation and turnover: Regulating the regulators Wiley Interdiscip. Rev.: RNA 3, 593-600
    • (2012) Wiley Interdiscip. Rev.: RNA , vol.3 , pp. 593-600
    • Zhang, Z.1    Qin, Y.W.2    Brewer, G.3    Jing, Q.4
  • 38
    • 79952672993 scopus 로고    scopus 로고
    • Impulse control: Temporal dynamics in gene transcription
    • Yosef, N. and Regev, A. (2011) Impulse control: Temporal dynamics in gene transcription Cell 144, 886-896
    • (2011) Cell , vol.144 , pp. 886-896
    • Yosef, N.1    Regev, A.2
  • 39
    • 84874619884 scopus 로고    scopus 로고
    • Transferring a synthetic gene circuit from yeast to mammalian cells
    • Nevozhay, D., Zal, T., and Balázsi, G. (2013) Transferring a synthetic gene circuit from yeast to mammalian cells Nat. Comm. 4, 1451
    • (2013) Nat. Comm. , vol.4 , pp. 1451
    • Nevozhay, D.1    Zal, T.2    Balázsi, G.3
  • 40
    • 80053197539 scopus 로고    scopus 로고
    • Argonaute protein identity and pairing geometry determine cooperativity in mammalian RNA silencing
    • Broderick, J. A., Salomon, W. E., Ryder, S. P., Aronin, N., and Zamore, P. D. (2011) Argonaute protein identity and pairing geometry determine cooperativity in mammalian RNA silencing RNA 17, 1858-1869
    • (2011) RNA , vol.17 , pp. 1858-1869
    • Broderick, J.A.1    Salomon, W.E.2    Ryder, S.P.3    Aronin, N.4    Zamore, P.D.5
  • 41
    • 84864872623 scopus 로고    scopus 로고
    • Kinetic analysis reveals successive steps leading to miRNA-mediated silencing in mammalian cells
    • Béthune, J., Artus-Revel, C. G., and Filipowicz, W. (2012) Kinetic analysis reveals successive steps leading to miRNA-mediated silencing in mammalian cells EMBO Rep. 13, 716-723
    • (2012) EMBO Rep. , vol.13 , pp. 716-723
    • Béthune, J.1    Artus-Revel, C.G.2    Filipowicz, W.3
  • 42
    • 67650231135 scopus 로고    scopus 로고
    • Identification of novel reference genes using multiplatform expression data and their validation for quantitative gene expression analysis
    • Kwon, M. J., Oh, E., Lee, S., Roh, M. R., Kim, S. E., Lee, Y., Choi, Y.-L., In, Y.-H., Park, T., and Koh, S. S. (2009) Identification of novel reference genes using multiplatform expression data and their validation for quantitative gene expression analysis PLoS One 4, e6162
    • (2009) PLoS One , vol.4 , pp. 6162
    • Kwon, M.J.1    Oh, E.2    Lee, S.3    Roh, M.R.4    Kim, S.E.5    Lee, Y.6    Choi, Y.-L.7    In, Y.-H.8    Park, T.9    Koh, S.S.10
  • 43
    • 62849110531 scopus 로고    scopus 로고
    • Identification and expression analysis of miRNAs during batch culture of HEK-293 cells
    • Koh, T.-C., Lee, Y.-Y., Chang, S.-Q., and Nissom, P. M. (2009) Identification and expression analysis of miRNAs during batch culture of HEK-293 cells J. Biotechnol. 140, 149-155
    • (2009) J. Biotechnol. , vol.140 , pp. 149-155
    • Koh, T.-C.1    Lee, Y.-Y.2    Chang, S.-Q.3    Nissom, P.M.4
  • 46
    • 84857228854 scopus 로고    scopus 로고
    • Identifying fluorescently labeled single molecules in image stacks using machine learning
    • Rifkin, S. A. (2011) Identifying fluorescently labeled single molecules in image stacks using machine learning Methods Mol. Biol. 772, 329
    • (2011) Methods Mol. Biol. , vol.772 , pp. 329
    • Rifkin, S.A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.