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Volumn , Issue , 2013, Pages 1404-1410

An in silico modeling toolbox for rapid prototyping of circuits in a biomolecular "breadboard" system

Author keywords

[No Author keywords available]

Indexed keywords

MATLAB; TIMING CIRCUITS;

EID: 84902337814     PISSN: 07431546     EISSN: 25762370     Source Type: Conference Proceeding    
DOI: 10.1109/CDC.2013.6760079     Document Type: Conference Paper
Times cited : (16)

References (29)
  • 2
    • 84863322344 scopus 로고    scopus 로고
    • Contextualizing context for synthetic biology identifying causes of failure of synthetic biological systems
    • Stefano Cardinale and Adam Paul Arkin. Contextualizing context for synthetic biology identifying causes of failure of synthetic biological systems. Biotechnology Journal, 7:856-866, 2012.
    • (2012) Biotechnology Journal , vol.7 , pp. 856-866
    • Cardinale, S.1    Arkin, A.P.2
  • 3
    • 84876382897 scopus 로고    scopus 로고
    • Validation of an entirely in vitro approach for rapid prototyping of dna regulatory elements for synthetic biology
    • James Chappell, Kirsten Jensen, and Paul S. Freemont. Validation of an entirely in vitro approach for rapid prototyping of dna regulatory elements for synthetic biology. Nucleic Acids Research, 41:3471- 3481, 2013.
    • (2013) Nucleic Acids Research , vol.41 , pp. 3471-3481
    • Chappell, J.1    Jensen, K.2    Freemont, P.S.3
  • 4
    • 78650334784 scopus 로고    scopus 로고
    • Build life to understand it
    • Michael Elowitz and Wendell A. Lim. Build life to understand it. Nature, 468:889-890, 2010.
    • (2010) Nature , vol.468 , pp. 889-890
    • Elowitz, M.1    Lim, W.A.2
  • 5
    • 28544451327 scopus 로고    scopus 로고
    • Foundations for engineering biology
    • Drew Endy. Foundations for engineering biology. Nature, 438:449- 453, 2005.
    • (2005) Nature , vol.438 , pp. 449-453
    • Endy, D.1
  • 6
    • 33845965687 scopus 로고    scopus 로고
    • Synthetic biology projects in vitro
    • Anthony C. Forster and George M. Church. Synthetic biology projects in vitro. Genome Research, 17:1-6, 2007.
    • (2007) Genome Research , vol.17 , pp. 1-6
    • Forster, A.C.1    Church, G.M.2
  • 7
    • 0033033283 scopus 로고    scopus 로고
    • Laser-mediated, site-specific inactivation of RNA transcripts
    • Dilara Grate and Charles Wilson. Laser-mediated, site-specific inactivation of RNA transcripts. Proc Natl Acad Sci USA, 96:6131-6136, 1999.
    • (1999) Proc Natl Acad Sci USA , vol.96 , pp. 6131-6136
    • Grate, D.1    Wilson, C.2
  • 8
    • 0038563932 scopus 로고    scopus 로고
    • An adaptive metropolis algorithm
    • H. Haario, E. Saksman, and J. Tamminen. An adaptive metropolis algorithm. Bernoulli, 7:223-242, 2001.
    • (2001) Bernoulli , vol.7 , pp. 223-242
    • Haario, H.1    Saksman, E.2    Tamminen, J.3
  • 9
    • 83255164998 scopus 로고    scopus 로고
    • Cell-free synthetic biology: Thinking outside the cell
    • C. E. Hodgman and M. C. Jewett. Cell-free synthetic biology: Thinking outside the cell. Metab. Eng., 14(3):261-269, 2012.
    • (2012) Metab. Eng. , vol.14 , Issue.3 , pp. 261-269
    • Hodgman, C.E.1    Jewett, M.C.2
  • 11
    • 53949093950 scopus 로고    scopus 로고
    • An integrated cell-free metabolic platform for protein production and synthetic biology
    • Michael C Jewett, Kara A Calhoun, Alexei Voloshin, Jessica J Wuu, and James R Swartz. An integrated cell-free metabolic platform for protein production and synthetic biology. Molecular Systems Biology, 4:220, 2008.
    • (2008) Molecular Systems Biology , vol.4 , pp. 220
    • Jewett, M.C.1    Calhoun, K.A.2    Voloshin, A.3    Wuu, J.J.4    Swartz, J.R.5
  • 12
    • 79251480753 scopus 로고    scopus 로고
    • Coarse-grained dynamics of protein synthesis in a cell-free system
    • Eyal Karzbrun, Jonghyeon Shin, Roy H. Bar-Ziv, and Vincent Noireaux. Coarse-grained dynamics of protein synthesis in a cell-free system. Phys. Rev. Lett., 106:048104, 2011.
    • (2011) Phys. Rev. Lett. , vol.106 , pp. 048104
    • Karzbrun, E.1    Shin, J.2    Bar-Ziv, R.H.3    Noireaux, V.4
  • 13
    • 0035921172 scopus 로고    scopus 로고
    • Regeneration of adenosine triphosphate from glycolytic intermediates for cell-free protein synthesis
    • Dong-Myung Kim and James R. Swartz. Regeneration of adenosine triphosphate from glycolytic intermediates for cell-free protein synthesis. Biotechnology and Bioengineering, 74(4):309-316, 2001.
    • (2001) Biotechnology and Bioengineering , vol.74 , Issue.4 , pp. 309-316
    • Kim, D.-M.1    Swartz, J.R.2
  • 14
    • 0030861452 scopus 로고    scopus 로고
    • Independent and tight regulation of transcriptional units in escherichia coli via the LacR/O, the TetR/O and AraC/11-12 regulatory elements
    • Rolf Lutz and Hermann Bujard. Independent and tight regulation of transcriptional units in escherichia coli via the LacR/O, the TetR/O and AraC/11-12 regulatory elements. Nucleic Acids Research, 25:1203- 1210, 1997.
    • (1997) Nucleic Acids Research , vol.25 , pp. 1203-1210
    • Lutz, R.1    Bujard, H.2
  • 15
    • 0034666279 scopus 로고    scopus 로고
    • Competition among seven escherichia coli subunits: Relative binding affinities to the core rna polymerase
    • Hiroto Maeda, Nobuyuki Fujita, and Akira Ishihama. Competition among seven escherichia coli subunits: Relative binding affinities to the core RNA polymerase. Nucleic Acids Research, 28:3497-3503, 2000.
    • (2000) Nucleic Acids Research , vol.28 , pp. 3497-3503
    • Maeda, H.1    Fujita, N.2    Ishihama, A.3
  • 16
    • 34447098490 scopus 로고    scopus 로고
    • The lambda gam protein inhibits RecBCD binding to dsDNA ends
    • Kenan C. Murphy. The lambda Gam protein inhibits RecBCD binding to dsDNA ends. Journal of Molecular Biology, 371:19-24, 2007.
    • (2007) Journal of Molecular Biology , vol.371 , pp. 19-24
    • Murphy, K.C.1
  • 17
    • 84882666602 scopus 로고    scopus 로고
    • Realtime mrna measurement during an in vitro transcription and translation reaction using binary probes
    • Henrike Niederholtmeyer, Ling Xu, and Sebastian J. Maerkl. Realtime mrna measurement during an in vitro transcription and translation reaction using binary probes. ACS Synthetic Biology, 2:411-417, 2013.
    • (2013) ACS Synthetic Biology , vol.2 , pp. 411-417
    • Niederholtmeyer, H.1    Xu, L.2    Maerkl, S.J.3
  • 18
    • 84855481443 scopus 로고    scopus 로고
    • Competition for catalytic resources alters biological network dynamics
    • Yannick Rondelez. Competition for catalytic resources alters biological network dynamics. Phys Rev Lett, 108(1):018102, 2012.
    • (2012) Phys Rev Lett , vol.108 , Issue.1 , pp. 018102
    • Rondelez, Y.1
  • 19
    • 78449268845 scopus 로고    scopus 로고
    • Interdependence of cell growth and gene expression: Origins and consequences
    • Matthew Scott, Carl W. Gunderson, Eduard M. Mateescu, Zhongge Zhang, and Terence Hwa. Interdependence of cell growth and gene expression: Origins and consequences. Science, 330(6007):1099- 1102, 2010.
    • (2010) Science , vol.330 , Issue.6007 , pp. 1099-1102
    • Scott, M.1    Gunderson, C.W.2    Mateescu, E.M.3    Zhang, Z.4    Hwa, T.5
  • 20
    • 84868243854 scopus 로고    scopus 로고
    • Genome replication, synthesis and assembly of the bacteriophage T7 in a single cell-free reaction
    • Jonghyeon Shin, Paul Jardine, and Vincent Noireaux. Genome replication, synthesis and assembly of the bacteriophage T7 in a single cell-free reaction. ACS Synth. Biol., 1:408-413, 2012.
    • (2012) ACS Synth. Biol. , vol.1 , pp. 408-413
    • Shin, J.1    Jardine, P.2    Noireaux, V.3
  • 21
    • 78649788244 scopus 로고    scopus 로고
    • Efficient cell-free expression with the endogenous E. Coli RNA polymerase and sigma factor 70
    • Jonghyeon Shin and Vincent Noireaux. Efficient cell-free expression with the endogenous E. Coli RNA polymerase and sigma factor 70. Journal of Biological Engineering, 4:8, 2010.
    • (2010) Journal of Biological Engineering , vol.4 , Issue.8
    • Shin, J.1    Noireaux, V.2
  • 22
    • 84863610029 scopus 로고    scopus 로고
    • An E. Coli cell-free expression toolbox: Application to synthetic gene circuits and artificial cells
    • Jonghyeon Shin and Vincent Noireaux. An E. coli cell-free expression toolbox: Application to synthetic gene circuits and artificial cells. ACS Synth. Biol., 1:29-41, 2012.
    • (2012) ACS Synth. Biol. , vol.1 , pp. 29-41
    • Shin, J.1    Noireaux, V.2
  • 24
    • 34447518290 scopus 로고    scopus 로고
    • Synthetic tetracycline-inducible regulatory networks: Computer-aided design of dynamic phenotypes
    • Vassilios Sotiropoulos and Yiannis N Kaznessis. Synthetic tetracycline-inducible regulatory networks: Computer-aided design of dynamic phenotypes. BMC Systems Biology, 1:7, 2007.
    • (2007) BMC Systems Biology , vol.1 , pp. 7
    • Sotiropoulos, V.1    Kaznessis, Y.N.2
  • 25
    • 84860443532 scopus 로고    scopus 로고
    • Experiment and mathematical modeling of gene expression dynamics in a cell-free system
    • Tobias Stogbauer, Lukas Windhager, Ralf Zimmer, and Joachim O. Radler. Experiment and mathematical modeling of gene expression dynamics in a cell-free system. Integrative Biology, 4:494-501, 2012.
    • (2012) Integrative Biology , vol.4 , pp. 494-501
    • Stogbauer, T.1    Windhager, L.2    Zimmer, R.3    Radler, J.O.4
  • 26
    • 84886838580 scopus 로고    scopus 로고
    • Protocols for implementing an escherichia coli based TX-TL cell-free expression system for synthetic biology
    • Zachary Z. Sun, Clarmyra A. Hayes, Jonghyeon Shin, Filippo Caschera, Richard M. Murray, and Vincent Noireaux. Protocols for implementing an escherichia coli based TX-TL cell-free expression system for synthetic biology. Journal of Visualized Experiments, 2013.
    • (2013) Journal of Visualized Experiments
    • Sun, Z.Z.1    Hayes, C.A.2    Shin, J.3    Caschera, F.4    Murray, R.M.5    Noireaux, V.6
  • 28
    • 35748929940 scopus 로고    scopus 로고
    • Enzyme localization can drastically affect signal amplification in signal transduction pathways
    • Siebe B van Albada and Pieter Rein ten Wolde. Enzyme localization can drastically affect signal amplification in signal transduction pathways. PLoS Comput Biol., 3:e195, 2007.
    • (2007) PLoS Comput Biol. , vol.3
    • Van Albada, S.B.1    Ten Wolde, P.R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.