메뉴 건너뛰기




Volumn , Issue , 2009, Pages 251-271

Synthetic Networks

Author keywords

Biological networks; Cell free genetic circuits; Minimal cell; Network architecture; Saturation in mutual repression circuit; Synthetic approaches to understanding cellular networks; Synthetic networks; Synthetic networks in vitro

Indexed keywords


EID: 84868223564     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1002/9780470741191.ch10     Document Type: Chapter
Times cited : (1)

References (61)
  • 2
    • 33745075591 scopus 로고    scopus 로고
    • Tools for kinetic modeling of biochemical networks
    • Alves, R., Antunes, F. and Salvador, A. (2006) Tools for kinetic modeling of biochemical networks. Nature Biotechnology, 24, 667-72.
    • (2006) Nature Biotechnology , vol.24 , pp. 667-672
    • Alves, R.1    Antunes, F.2    Salvador, A.3
  • 3
    • 0141596113 scopus 로고    scopus 로고
    • Molecular networks: The top-down view
    • Bray, D. (2003) Molecular networks: The top-down view. Science, 301, 1864-5.
    • (2003) Science , vol.301 , pp. 1864-1865
    • Bray, D.1
  • 4
    • 0141484562 scopus 로고    scopus 로고
    • Biological networks: The tinkerer as an engineer
    • Alon, U. (2003) Biological networks: The tinkerer as an engineer. Science, 301, 1866-7.
    • (2003) Science , vol.301 , pp. 1866-1867
    • Alon, U.1
  • 5
    • 0015231849 scopus 로고
    • Parameter sensitivity as a criterion for evaluating and comparing the performance of biochemical systems
    • Savageau, M.A. (1971) Parameter sensitivity as a criterion for evaluating and comparing the performance of biochemical systems. Nature, 229, 542-4.
    • (1971) Nature , vol.229 , pp. 542-544
    • Savageau, M.A.1
  • 6
    • 0036578795 scopus 로고    scopus 로고
    • Network motifs in the transcriptional regulation network of Escherichia coli
    • Shen-Orr, S.S., Milo, R., Mangan, S. and Alon, U. (2002) Network motifs in the transcriptional regulation network of Escherichia coli. Nature Genetics, 31, 64-8.
    • (2002) Nature Genetics , vol.31 , pp. 64-68
    • Shen-Orr, S.S.1    Milo, R.2    Mangan, S.3    Alon, U.4
  • 7
    • 1542287343 scopus 로고    scopus 로고
    • Superfamilies of evolved and designed networks
    • Milo, R. et al. (2002) Superfamilies of evolved and designed networks. Science, 303, 1538-42.
    • (2002) Science , vol.303 , pp. 1538-1542
    • Milo, R.1
  • 8
    • 22244453103 scopus 로고    scopus 로고
    • Environmental selection of the feed-forward loop circuit in gene-regulation networks
    • Dekel, E., Mangan, S. and Alon, U. (2005) Environmental selection of the feed-forward loop circuit in gene-regulation networks. Physical Biology, 2, 81-8.
    • (2005) Physical Biology , vol.2 , pp. 81-88
    • Dekel, E.1    Mangan, S.2    Alon, U.3
  • 11
    • 0035826155 scopus 로고    scopus 로고
    • Exploring complex networks
    • Strogatz, S.H. (2001) Exploring complex networks. Nature, 410, 268-76.
    • (2001) Nature , vol.410 , pp. 268-276
    • Strogatz, S.H.1
  • 12
    • 13644255535 scopus 로고    scopus 로고
    • Accelerating networks
    • Mattick, J.S. and Gagen, M.J. (2005) Accelerating networks. Science, 307, 856-8.
    • (2005) Science , vol.307 , pp. 856-858
    • Mattick, J.S.1    Gagen, M.J.2
  • 14
    • 0041828241 scopus 로고    scopus 로고
    • Scaling laws in the functional content of genomes
    • van Nimwegen, E. (2003) Scaling laws in the functional content of genomes. Trends in Genetics, 19, 479-84.
    • (2003) Trends in Genetics , vol.19 , pp. 479-484
    • Van Nimwegen, E.1
  • 18
    • 0034212551 scopus 로고    scopus 로고
    • Engineering stability in gene networks by autoregulation
    • Becskei, A. and Serrano, L. (2000) Engineering stability in gene networks by autoregulation. Nature, 405, 590-3.
    • (2000) Nature , vol.405 , pp. 590-593
    • Becskei, A.1    Serrano, L.2
  • 19
    • 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. (2001) Positive feedback in eukaryotic gene networks: Cell differentiation by graded to binary response conversion. The EMBO Journal, 20, 2528-35.
    • (2001) The EMBO Journal , vol.20 , pp. 2528-2535
    • Becskei, A.1    Seraphin, B.2    Serrano, L.3
  • 21
    • 0034688174 scopus 로고    scopus 로고
    • Construction of a genetic toggle switch in Escherichia coli
    • Gardner, T.S., Cantor, C.R. and Collins, J.J. (2000) Construction of a genetic toggle switch in Escherichia coli. Nature, 403, 339-42.
    • (2000) Nature , vol.403 , pp. 339-342
    • Gardner, T.S.1    Cantor, C.R.2    Collins, J.J.3
  • 22
    • 0034688173 scopus 로고    scopus 로고
    • Asynthetic oscillatory network of transcriptional regulators
    • Elowitz,M.B. and Leibler, S. (2000)Asynthetic oscillatory network of transcriptional regulators. Nature, 403, 335-8.
    • (2000) Nature , vol.403 , pp. 335-338
    • Elowitz, M.B.1    Leibler, S.2
  • 23
    • 0038241770 scopus 로고    scopus 로고
    • Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli
    • Atkinson, M.R., Savageau, M.A., Myers, J.T. and Ninfa, A.J. (2003) Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli. Cell, 113, 597-607.
    • (2003) Cell , vol.113 , pp. 597-607
    • Atkinson, M.R.1    Savageau, M.A.2    Myers, J.T.3    Ninfa, A.J.4
  • 24
    • 1442354192 scopus 로고    scopus 로고
    • Multistability in the lactose utilization network of Escherichia coli
    • Ozbudak, E.M., Thattai, M., Lim, H.N., Shraiman, B.I. et al. (2004) Multistability in the lactose utilization network of Escherichia coli. Nature, 427, 737-40.
    • (2004) Nature , vol.427 , pp. 737-740
    • Ozbudak, E.M.1    Thattai, M.2    Lim, H.N.3    Shraiman, B.I.4
  • 26
    • 21444457242 scopus 로고    scopus 로고
    • Programmable ligand-controlled riboregulators of eukaryotic gene expression
    • Bayer, T.S. and Smolke, C.D. (2005) Programmable ligand-controlled riboregulators of eukaryotic gene expression. Nature Biotechnology, 23, 337-43.
    • (2005) Nature Biotechnology , vol.23 , pp. 337-343
    • Bayer, T.S.1    Smolke, C.D.2
  • 27
    • 0141757323 scopus 로고    scopus 로고
    • Reprogramming control of an allosteric signaling switch through modular recombination
    • Dueber, J.E., Yeh, B.J., Chak, K. and Lim,W.A. (2003) Reprogramming control of an allosteric signaling switch through modular recombination. Science, 301, 1904-8.
    • (2003) Science , vol.301 , pp. 1904-1908
    • Dueber, J.E.1    Yeh, B.J.2    Chak, K.3    Lim, W.A.4
  • 28
    • 0034688220 scopus 로고    scopus 로고
    • Circadian clocks limited by noise
    • Barkai, N. and Leibler, S. (2000) Circadian clocks limited by noise. Nature, 403, 267-8.
    • (2000) Nature , vol.403 , pp. 267-268
    • Barkai, N.1    Leibler, S.2
  • 29
    • 15044341917 scopus 로고    scopus 로고
    • Cellular oscillators: rhythmic gene expression and metabolism
    • Schibler, U. and Naef, F. (2005) Cellular oscillators: rhythmic gene expression and metabolism. Current Opinion in Cell Biology, 17, 223-9.
    • (2005) Current Opinion in Cell Biology , vol.17 , pp. 223-229
    • Schibler, U.1    Naef, F.2
  • 30
    • 33745311466 scopus 로고    scopus 로고
    • The design of intracellular oscillators that interact with metabolism
    • Wong, W.W. and Liao, J.C. (2006) The design of intracellular oscillators that interact with metabolism. Cellular and Molecular Life Sciences, 63, 1215-20.
    • (2006) Cellular and Molecular Life Sciences , vol.63 , pp. 1215-1220
    • Wong, W.W.1    Liao, J.C.2
  • 31
    • 0038299558 scopus 로고    scopus 로고
    • Role of microRNAs in plant and animal development
    • Carrington, J.C. and Ambros, V. (2003) Role of microRNAs in plant and animal development. Science, 301, 336-8.
    • (2003) Science , vol.301 , pp. 336-338
    • Carrington, J.C.1    Ambros, V.2
  • 32
    • 0242669950 scopus 로고    scopus 로고
    • Role for antisense RNA in regulating circadian clock function in Neurospora crassa
    • Kramer, C., Loros, J.J., Dunlap, J.C. and Crosthwaite, S.K. (2003) Role for antisense RNA in regulating circadian clock function in Neurospora crassa. Nature, 421, 948-52.
    • (2003) Nature , vol.421 , pp. 948-952
    • Kramer, C.1    Loros, J.J.2    Dunlap, J.C.3    Crosthwaite, S.K.4
  • 33
    • 3042741121 scopus 로고    scopus 로고
    • Engineered riboregulators enable posttranscriptional control of gene expression
    • Isaacs, F.J., Dwyer, D.J., Ding, C. et al. (2004) Engineered riboregulators enable posttranscriptional control of gene expression. Nature Biotechnology, 22, 841-7.
    • (2004) Nature Biotechnology , vol.22 , pp. 841-847
    • Isaacs, F.J.1    Dwyer, D.J.2    Ding, C.3
  • 35
    • 36949058437 scopus 로고
    • Concentration wave propagation in 2-dimensional liquid-phase self-oscillating system
    • Zaikin, A.N. and Zhabotinsky, A.M. (1970) Concentration wave propagation in 2-dimensional liquid-phase self-oscillating system. Nature, 225, 535-7.
    • (1970) Nature , vol.225 , pp. 535-537
    • Zaikin, A.N.1    Zhabotinsky, A.M.2
  • 36
    • 17244373578 scopus 로고    scopus 로고
    • Reconstitution of circadian oscillation of cyanobacterial KaiC phosphorylation in vitro
    • Nakajima, M., Imai, K., Ito, H. et al. (2005) Reconstitution of circadian oscillation of cyanobacterial KaiC phosphorylation in vitro. Science, 308, 414-15.
    • (2005) Science , vol.308 , pp. 414-415
    • Nakajima, M.1    Imai, K.2    Ito, H.3
  • 37
    • 0034904102 scopus 로고    scopus 로고
    • Cell-free translation reconstituted with purified components
    • Shimizu, Y., Inoue, A., Tomari, Y. et al. (2001) Cell-free translation reconstituted with purified components. Nature Biotechnology, 19, 751-5.
    • (2001) Nature Biotechnology , vol.19 , pp. 751-755
    • Shimizu, Y.1    Inoue, A.2    Tomari, Y.3
  • 39
    • 18144363600 scopus 로고    scopus 로고
    • Engineering gene networks to emulate Drosophila embryonic pattern formation
    • Isalan,M., Lemerle, C. and Serrano, L. (2005) Engineering gene networks to emulate Drosophila embryonic pattern formation. PLoS Biology, 3, e64.
    • (2005) PLoS Biology , vol.3
    • Isalan, M.1    Lemerle, C.2    Serrano, L.3
  • 40
    • 0030887814 scopus 로고    scopus 로고
    • A molecular predatory and its prey: Coupled isothermal amplification of nucleic acids
    • Wlotzka, B. and McCaskill, J.S. (1997) A molecular predatory and its prey: Coupled isothermal amplification of nucleic acids. Chemistry and Biology, 4, 25-33.
    • (1997) Chemistry and Biology , vol.4 , pp. 25-33
    • Wlotzka, B.1    McCaskill, J.S.2
  • 43
    • 33846116559 scopus 로고    scopus 로고
    • Construction of an in vitro bistable circuit from synthetic transcriptional switches
    • Kim, J., White, K.S. and Winfree, E. (2006) Construction of an in vitro bistable circuit from synthetic transcriptional switches. Molecular Systems Biology, 2, 68.
    • (2006) Molecular Systems Biology , vol.2 , pp. 68
    • Kim, J.1    White, K.S.2    Winfree, E.3
  • 44
    • 0031879114 scopus 로고    scopus 로고
    • Stochastic kinetic analysis of developmental pathway bifurcation in phage λ-infected E. coli cells
    • Arkin, A., Ross, J. and McAdams, H.H. (1998) Stochastic kinetic analysis of developmental pathway bifurcation in phage λ-infected E. coli cells. Genetics, 149, 1633-48.
    • (1998) Genetics , vol.149 , pp. 1633-1648
    • Arkin, A.1    Ross, J.2    McAdams, H.H.3
  • 46
    • 0037165942 scopus 로고    scopus 로고
    • Combinatorial synthesis of genetic networks
    • Guet, C.C., Elowitz, M.B., Hsing, W. and Leibler, S. (2002) Combinatorial synthesis of genetic networks. Science, 296, 1466-70.
    • (2002) Science , vol.296 , pp. 1466-1470
    • Guet, C.C.1    Elowitz, M.B.2    Hsing, W.3    Leibler, S.4
  • 47
    • 0242490792 scopus 로고    scopus 로고
    • Limitations of quantitative gene regulation models: A case study
    • Kim, P.M. and Tidor, B. (2003) Limitations of quantitative gene regulation models: A case study. Genome Research, 13, 2391-5.
    • (2003) Genome Research , vol.13 , pp. 2391-2395
    • Kim, P.M.1    Tidor, B.2
  • 48
    • 0030024281 scopus 로고    scopus 로고
    • Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA
    • Keiler, K.C., Waller, P.R.H. and Sauer, R.T. (1996) Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA. Science, 271, 990-3.
    • (1996) Science , vol.271 , pp. 990-993
    • Keiler, K.C.1    Waller, P.R.H.2    Sauer, R.T.3
  • 49
    • 0032825178 scopus 로고    scopus 로고
    • Poly[G] improved protein productivity of cell-free translation by inhibiting mRNase in wheat germ extract
    • Shen, X.-C. et al. (1999) Poly[G] improved protein productivity of cell-free translation by inhibiting mRNase in wheat germ extract. Journal of Biotechnology, 75, 221-8.
    • (1999) Journal of Biotechnology , vol.75 , pp. 221-228
    • Shen, X.-C.1
  • 51
    • 0030735085 scopus 로고    scopus 로고
    • Cleavage of single strand RNA adjacent to RNA-DNA duplex regions by Escherichia coli RNase H1
    • Lima, W.F. and Crooke, S.T. (1997) Cleavage of single strand RNA adjacent to RNA-DNA duplex regions by Escherichia coli RNase H1. Journal of Biological Chemistry, 272, 27513-16.
    • (1997) Journal of Biological Chemistry , vol.272 , pp. 27513-27516
    • Lima, W.F.1    Crooke, S.T.2
  • 53
    • 0033368475 scopus 로고    scopus 로고
    • Messenger RNA stability and its role in control of gene expression in bacteria and phages
    • Grunberg-Manago, M. (1999) Messenger RNA stability and its role in control of gene expression in bacteria and phages. Annual Review of Genetics, 33, 193-227.
    • (1999) Annual Review of Genetics , vol.33 , pp. 193-227
    • Grunberg-Manago, M.1
  • 58
    • 0035906978 scopus 로고    scopus 로고
    • RNA-catalyzed RNA polymerization: Accurate and general RNA-templated primer extension
    • Johnston,W.K., Unrau, P.J., Lawrence, M.S. et al. (2001) RNA-catalyzed RNA polymerization: Accurate and general RNA-templated primer extension. Science, 292, 1319-25.
    • (2001) Science , vol.292 , pp. 1319-1325
    • Johnston, W.K.1    Unrau, P.J.2    Lawrence, M.S.3
  • 60
    • 1942467023 scopus 로고    scopus 로고
    • Programmed population control by cell-cell communication and regulated killing
    • You, L., Cox, R.S. 3rd, Weiss, R. and Arnold, F.H. (2004) Programmed population control by cell-cell communication and regulated killing. Nature, 428, 868-71.
    • (2004) Nature , vol.428 , pp. 868-871
    • You, L.1    Cox, R.S.2    Weiss, R.3    Arnold, F.H.4
  • 61
    • 21644441288 scopus 로고    scopus 로고
    • Long-term monitoring of bacteria undergoing programmed population control in a microchemostat
    • Balagadde, F.K.,You, L., Hansen, C.L. et al. (2005) Long-term monitoring of bacteria undergoing programmed population control in a microchemostat. Science, 309, 137-40.
    • (2005) Science , vol.309 , pp. 137-140
    • Balagadde, F.K.1    You, L.2    Hansen, C.L.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.