메뉴 건너뛰기




Volumn 24, Issue , 2015, Pages 113-123

How to train your microbe: Methods for dynamically characterizing gene networks

Author keywords

[No Author keywords available]

Indexed keywords

TRANSCRIPTION FACTOR; BACTERIAL PROTEIN;

EID: 84922461814     PISSN: 13695274     EISSN: 18790364     Source Type: Journal    
DOI: 10.1016/j.mib.2015.01.008     Document Type: Review
Times cited : (22)

References (125)
  • 1
    • 84889256682 scopus 로고    scopus 로고
    • Functional roles of pulsing in genetic circuits
    • Levine J.H., Lin Y., Elowitz M.B. Functional roles of pulsing in genetic circuits. Science 2013, 342:1193-1200.
    • (2013) Science , vol.342 , pp. 1193-1200
    • Levine, J.H.1    Lin, Y.2    Elowitz, M.B.3
  • 3
    • 79952672993 scopus 로고    scopus 로고
    • Impulse control: temporal dynamics in gene transcription
    • Yosef N., Regev A. Impulse control: temporal dynamics in gene transcription. Cell 2011, 144:886-896.
    • (2011) Cell , vol.144 , pp. 886-896
    • Yosef, N.1    Regev, A.2
  • 4
    • 84874765320 scopus 로고    scopus 로고
    • Encoding and decoding cellular information through signaling dynamics
    • Purvis J.E., Lahav G. Encoding and decoding cellular information through signaling dynamics. Cell 2013, 152:945-956.
    • (2013) Cell , vol.152 , pp. 945-956
    • Purvis, J.E.1    Lahav, G.2
  • 5
    • 4644326931 scopus 로고    scopus 로고
    • Genomic analysis of regulatory network dynamics reveals large topological changes
    • Luscombe N.M., Babu M.M., Yu H., Snyder M., Teichmann S.A., Gerstein M. Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 2004, 431:308-312.
    • (2004) Nature , vol.431 , pp. 308-312
    • Luscombe, N.M.1    Babu, M.M.2    Yu, H.3    Snyder, M.4    Teichmann, S.A.5    Gerstein, M.6
  • 6
    • 34247464637 scopus 로고    scopus 로고
    • Revealing static and dynamic modular architecture of the eukaryotic protein interaction network
    • Komurov K., White M. Revealing static and dynamic modular architecture of the eukaryotic protein interaction network. Mol Syst Biol 2007, 3:110.
    • (2007) Mol Syst Biol , vol.3 , pp. 110
    • Komurov, K.1    White, M.2
  • 8
    • 84856094560 scopus 로고    scopus 로고
    • Differential network biology
    • Ideker T., Krogan N.J. Differential network biology. Mol Syst Biol 2012, 8:565.
    • (2012) Mol Syst Biol , vol.8 , pp. 565
    • Ideker, T.1    Krogan, N.J.2
  • 9
    • 84863525909 scopus 로고    scopus 로고
    • How networks change with time
    • Park Y., Bader J.S. How networks change with time. Bioinformatics 2012, 28:i40-i48.
    • (2012) Bioinformatics , vol.28 , pp. i40-i48
    • Park, Y.1    Bader, J.S.2
  • 10
    • 0742305866 scopus 로고    scopus 로고
    • Network biology: understanding the cell's functional organization
    • Barabási A.-L., Oltvai Z.N. Network biology: understanding the cell's functional organization. Nat Rev Genet 2004, 5:101-113.
    • (2004) Nat Rev Genet , vol.5 , pp. 101-113
    • Barabási, A.-L.1    Oltvai, Z.N.2
  • 11
    • 33748846417 scopus 로고    scopus 로고
    • Transcriptional regulatory networks in bacteria: from input signals to output responses
    • Seshasayee A.S.N., Bertone P., Fraser G.M., Luscombe N.M. Transcriptional regulatory networks in bacteria: from input signals to output responses. Curr Opin Microbiol 2006, 9:511-519.
    • (2006) Curr Opin Microbiol , vol.9 , pp. 511-519
    • Seshasayee, A.S.N.1    Bertone, P.2    Fraser, G.M.3    Luscombe, N.M.4
  • 14
    • 70350452758 scopus 로고    scopus 로고
    • Understanding modularity in molecular networks requires dynamics
    • pe44-pe44
    • Alexander R.P., Kim P.M., Emonet T., Gerstein M.B. Understanding modularity in molecular networks requires dynamics. Sci Signal 2009, 2. pe44-pe44.
    • (2009) Sci Signal , vol.2
    • Alexander, R.P.1    Kim, P.M.2    Emonet, T.3    Gerstein, M.B.4
  • 15
    • 84902823142 scopus 로고    scopus 로고
    • Optogenetic characterization methods overcome key challenges in synthetic and systems biology
    • Olson E.J., Tabor J.J. Optogenetic characterization methods overcome key challenges in synthetic and systems biology. Nature Chem Biol 2014, 10:502-511.
    • (2014) Nature Chem Biol , vol.10 , pp. 502-511
    • Olson, E.J.1    Tabor, J.J.2
  • 16
    • 84874629638 scopus 로고    scopus 로고
    • Rate of environmental change determines stress response specificity
    • Young J.W., Locke J.C.W., Elowitz M.B. Rate of environmental change determines stress response specificity. Proc Natl Acad Sci USA 2013, 110:4140-4145.
    • (2013) Proc Natl Acad Sci USA , vol.110 , pp. 4140-4145
    • Young, J.W.1    Locke, J.C.W.2    Elowitz, M.B.3
  • 19
    • 84857766780 scopus 로고    scopus 로고
    • Diverse sensitivity thresholds in dynamic signaling responses by social amoebae
    • ra17-ra17
    • Wang C.J., Bergmann A., Lin B., Kim K., Levchenko A. Diverse sensitivity thresholds in dynamic signaling responses by social amoebae. Sci Signal 2012, 5. ra17-ra17.
    • (2012) Sci Signal , vol.5
    • Wang, C.J.1    Bergmann, A.2    Lin, B.3    Kim, K.4    Levchenko, A.5
  • 20
    • 34547607675 scopus 로고    scopus 로고
    • A synthetic gene network for tuning protein degradation in Saccharomyces cerevisiae
    • Grilly C., Stricker J., Pang W.L., Bennett M.R., Hasty J. A synthetic gene network for tuning protein degradation in Saccharomyces cerevisiae. Mol Syst Biol 2007, 3:127.
    • (2007) Mol Syst Biol , vol.3 , pp. 127
    • Grilly, C.1    Stricker, J.2    Pang, W.L.3    Bennett, M.R.4    Hasty, J.5
  • 22
    • 31044433976 scopus 로고    scopus 로고
    • Transcriptional response of steady-state yeast cultures to transient perturbations in carbon source
    • Ronen M., Botstein D. Transcriptional response of steady-state yeast cultures to transient perturbations in carbon source. Proc Natl Acad Sci USA 2006, 103:389-394.
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 389-394
    • Ronen, M.1    Botstein, D.2
  • 23
    • 84864751449 scopus 로고    scopus 로고
    • Perturbation-based analysis and modeling of combinatorial regulation in the yeast sulfur assimilation pathway
    • McIsaac R.S., Petti A.A., Bussemaker H.J., Botstein D. Perturbation-based analysis and modeling of combinatorial regulation in the yeast sulfur assimilation pathway. Mol Biol Cell 2012, 23:2993-3007.
    • (2012) Mol Biol Cell , vol.23 , pp. 2993-3007
    • McIsaac, R.S.1    Petti, A.A.2    Bussemaker, H.J.3    Botstein, D.4
  • 24
    • 84855424553 scopus 로고    scopus 로고
    • Signal-dependent dynamics of transcription factor translocation controls gene expression
    • Hao N., O'Shea E.K. Signal-dependent dynamics of transcription factor translocation controls gene expression. Nat Struct Mol Biol 2012, 19:31-39.
    • (2012) Nat Struct Mol Biol , vol.19 , pp. 31-39
    • Hao, N.1    O'Shea, E.K.2
  • 25
    • 84872813837 scopus 로고    scopus 로고
    • Tunable signal processing through modular control of transcription factor translocation
    • Hao N., Budnik B.A., Gunawardena J., O'Shea E.K. Tunable signal processing through modular control of transcription factor translocation. Science 2013, 339:460-464.
    • (2013) Science , vol.339 , pp. 460-464
    • Hao, N.1    Budnik, B.A.2    Gunawardena, J.3    O'Shea, E.K.4
  • 27
    • 67649669252 scopus 로고    scopus 로고
    • A systems-level analysis of perfect adaptation in yeast osmoregulation
    • Muzzey D., Gómez-Uribe C.A., Mettetal J.T., van Oudenaarden A. A systems-level analysis of perfect adaptation in yeast osmoregulation. Cell 2009, 138:160-171.
    • (2009) Cell , vol.138 , pp. 160-171
    • Muzzey, D.1    Gómez-Uribe, C.A.2    Mettetal, J.T.3    van Oudenaarden, A.4
  • 28
    • 38549084632 scopus 로고    scopus 로고
    • The frequency dependence of osmo-adaptation in Saccharomyces cerevisiae
    • Mettetal J.T., Muzzey D., Gómez-Uribe C., van Oudenaarden A. The frequency dependence of osmo-adaptation in Saccharomyces cerevisiae. Science 2008, 319:482-484.
    • (2008) Science , vol.319 , pp. 482-484
    • Mettetal, J.T.1    Muzzey, D.2    Gómez-Uribe, C.3    van Oudenaarden, A.4
  • 30
    • 77954024185 scopus 로고    scopus 로고
    • A modular gradient-sensing network for chemotaxis in Escherichia coli revealed by responses to time-varying stimuli
    • Shimizu T.S., Tu Y., Berg H.C. A modular gradient-sensing network for chemotaxis in Escherichia coli revealed by responses to time-varying stimuli. Mol Syst Biol 2010, 6:382.
    • (2010) Mol Syst Biol , vol.6 , pp. 382
    • Shimizu, T.S.1    Tu, Y.2    Berg, H.C.3
  • 31
    • 84880789957 scopus 로고    scopus 로고
    • Feedforward regulation ensures stability and rapid reversibility of a cellular state
    • Doncic A., Skotheim J.M. Feedforward regulation ensures stability and rapid reversibility of a cellular state. Mol Cell 2013, 50:856-868.
    • (2013) Mol Cell , vol.50 , pp. 856-868
    • Doncic, A.1    Skotheim, J.M.2
  • 32
    • 80051720034 scopus 로고    scopus 로고
    • Distinct interactions select and maintain a specific cell fate
    • Doncic A., Falleur-Fettig M., Skotheim J.M. Distinct interactions select and maintain a specific cell fate. Mol Cell 2011, 43:528-539.
    • (2011) Mol Cell , vol.43 , pp. 528-539
    • Doncic, A.1    Falleur-Fettig, M.2    Skotheim, J.M.3
  • 34
    • 79955753549 scopus 로고    scopus 로고
    • Transient activation of the HOG-MAPK pathway regulates bimodal gene expression
    • Pelet S., Rudolf F., Nadal-Ribelles M., de Nadal E., Posas F., Peter M. Transient activation of the HOG-MAPK pathway regulates bimodal gene expression. Science 2011, 332:732-735.
    • (2011) Science , vol.332 , pp. 732-735
    • Pelet, S.1    Rudolf, F.2    Nadal-Ribelles, M.3    de Nadal, E.4    Posas, F.5    Peter, M.6
  • 35
    • 0024500464 scopus 로고
    • Upstream activation sequence-dependent alteration of chromatin structure and transcription activation of the yeast GAL1-GAL10 genes
    • Fedor M.J., Kornberg R.D. Upstream activation sequence-dependent alteration of chromatin structure and transcription activation of the yeast GAL1-GAL10 genes. Mol Cell Biol 1989, 9:1721-1732.
    • (1989) Mol Cell Biol , vol.9 , pp. 1721-1732
    • Fedor, M.J.1    Kornberg, R.D.2
  • 37
    • 70350336588 scopus 로고    scopus 로고
    • Architecture-dependent noise discriminates functionally analogous differentiation circuits
    • Çağatay T., Turcotte M., Elowitz M.B., Garcia-Ojalvo J., Süel G.M. Architecture-dependent noise discriminates functionally analogous differentiation circuits. Cell 2009, 139:512-522.
    • (2009) Cell , vol.139 , pp. 512-522
    • Çağatay, T.1    Turcotte, M.2    Elowitz, M.B.3    Garcia-Ojalvo, J.4    Süel, G.M.5
  • 39
    • 84884704805 scopus 로고    scopus 로고
    • Triggering sporulation in Bacillus subtilis with artificial two-component systems reveals the importance of proper Spo0A activation dynamics
    • Vishnoi M., Narula J., Devi S.N., Dao H.-A., Igoshin O.A., Fujita M. Triggering sporulation in Bacillus subtilis with artificial two-component systems reveals the importance of proper Spo0A activation dynamics. Mol Microbiol 2013, 90:181-194.
    • (2013) Mol Microbiol , vol.90 , pp. 181-194
    • Vishnoi, M.1    Narula, J.2    Devi, S.N.3    Dao, H.-A.4    Igoshin, O.A.5    Fujita, M.6
  • 40
    • 39649083113 scopus 로고    scopus 로고
    • Induction and relaxation dynamics of the regulatory network controlling the type III secretion system encoded within Salmonella pathogenicity island 1
    • Temme K., Salis H., Tullman-Ercek D., Levskaya A., Hong S.-H., Voigt C.A. Induction and relaxation dynamics of the regulatory network controlling the type III secretion system encoded within Salmonella pathogenicity island 1. J Mol Biol 2008, 377:47-61.
    • (2008) J Mol Biol , vol.377 , pp. 47-61
    • Temme, K.1    Salis, H.2    Tullman-Ercek, D.3    Levskaya, A.4    Hong, S.-H.5    Voigt, C.A.6
  • 41
    • 24944483644 scopus 로고    scopus 로고
    • Evidence that entry into sporulation in Bacillus subtilis is governed by a gradual increase in the level and activity of the master regulator Spo0A
    • Fujita M., Losick R. Evidence that entry into sporulation in Bacillus subtilis is governed by a gradual increase in the level and activity of the master regulator Spo0A. Genes Dev 2005, 19:2236-2244.
    • (2005) Genes Dev , vol.19 , pp. 2236-2244
    • Fujita, M.1    Losick, R.2
  • 42
    • 84874412536 scopus 로고    scopus 로고
    • Ultrasensitivity of the Bacillus subtilis sporulation decision
    • Narula J., Devi S.N., Fujita M., Igoshin O.A. Ultrasensitivity of the Bacillus subtilis sporulation decision. Proc Natl Acad Sci USA 2012, 109:E3513-E3522.
    • (2012) Proc Natl Acad Sci USA , vol.109 , pp. E3513-E3522
    • Narula, J.1    Devi, S.N.2    Fujita, M.3    Igoshin, O.A.4
  • 43
    • 38349081513 scopus 로고    scopus 로고
    • A negative feedback loop involving small RNAs accelerates Vibrio cholerae's transition out of quorum-sensing mode
    • Svenningsen S.L., Waters C.M., Bassler B.L. A negative feedback loop involving small RNAs accelerates Vibrio cholerae's transition out of quorum-sensing mode. Genes Dev 2008, 22:226-238.
    • (2008) Genes Dev , vol.22 , pp. 226-238
    • Svenningsen, S.L.1    Waters, C.M.2    Bassler, B.L.3
  • 45
    • 84908460076 scopus 로고    scopus 로고
    • A nutrient-tunable bistable switch controls motility in Salmonella enterica serovar Typhimurium
    • Koirala S., Mears P., Sim M., Golding I., Chemla Y.R., Aldridge P.D., Rao C.V. A nutrient-tunable bistable switch controls motility in Salmonella enterica serovar Typhimurium. MBio 2014, 5:e01611-e1614.
    • (2014) MBio , vol.5 , pp. e01611-e1614
    • Koirala, S.1    Mears, P.2    Sim, M.3    Golding, I.4    Chemla, Y.R.5    Aldridge, P.D.6    Rao, C.V.7
  • 46
    • 77952903892 scopus 로고    scopus 로고
    • Rewiring cells: synthetic biology as a tool to interrogate the organizational principles of living systems
    • Bashor C.J., Horwitz A.A., Peisajovich S.G., Lim W.A. Rewiring cells: synthetic biology as a tool to interrogate the organizational principles of living systems. Annu Rev Biophys 2010, 39:515-537.
    • (2010) Annu Rev Biophys , vol.39 , pp. 515-537
    • Bashor, C.J.1    Horwitz, A.A.2    Peisajovich, S.G.3    Lim, W.A.4
  • 47
    • 84920468768 scopus 로고    scopus 로고
    • A DNA damage-induced. SOS-independent checkpoint regulates cell division in Caulobacter crescentus
    • Modell J.W., Kambara T.K., Perchuk B.S., Laub M.T. A DNA damage-induced. SOS-independent checkpoint regulates cell division in Caulobacter crescentus. PLoS Biol 2014, 12:e1001977.
    • (2014) PLoS Biol , vol.12 , pp. e1001977
    • Modell, J.W.1    Kambara, T.K.2    Perchuk, B.S.3    Laub, M.T.4
  • 48
    • 0027524272 scopus 로고
    • Regulation of the phosphorelay and the initiation of sporulation in Bacillus subtilis
    • Hoch J.A. Regulation of the phosphorelay and the initiation of sporulation in Bacillus subtilis. Ann Rev. Microbiol. 1993, 47:441-465.
    • (1993) Ann Rev. Microbiol. , vol.47 , pp. 441-465
    • Hoch, J.A.1
  • 49
    • 0029565061 scopus 로고
    • Genetic networks controlling the initiation of sporulation and the development of genetic competence in Bacillus subtilis
    • Grossman A.D. Genetic networks controlling the initiation of sporulation and the development of genetic competence in Bacillus subtilis. Annu Rev Genet 1995, 29:477-508.
    • (1995) Annu Rev Genet , vol.29 , pp. 477-508
    • Grossman, A.D.1
  • 50
    • 69249235738 scopus 로고    scopus 로고
    • A mechanism for cell cycle regulation of sporulation initiation in Bacillus subtilis
    • Veening J.W., Murray H., Errington J. A mechanism for cell cycle regulation of sporulation initiation in Bacillus subtilis. Genes Dev 2009, 23:1959-1970.
    • (2009) Genes Dev , vol.23 , pp. 1959-1970
    • Veening, J.W.1    Murray, H.2    Errington, J.3
  • 54
    • 84889261450 scopus 로고    scopus 로고
    • Promoter decoding of transcription factor dynamics involves a trade-off between noise and control of gene expression
    • Hansen A.S., O'Shea E.K. Promoter decoding of transcription factor dynamics involves a trade-off between noise and control of gene expression. Mol Syst Biol 2013, 9:704.
    • (2013) Mol Syst Biol , vol.9 , pp. 704
    • Hansen, A.S.1    O'Shea, E.K.2
  • 55
    • 84897954571 scopus 로고    scopus 로고
    • Characterizing bacterial gene circuit dynamics with optically programmed gene expression signals
    • Olson E.J., Hartsough L.A., Landry B.P., Shroff R., Tabor J.J. Characterizing bacterial gene circuit dynamics with optically programmed gene expression signals. Nat Methods 2014, 11:449-455.
    • (2014) Nat Methods , vol.11 , pp. 449-455
    • Olson, E.J.1    Hartsough, L.A.2    Landry, B.P.3    Shroff, R.4    Tabor, J.J.5
  • 57
    • 84896823392 scopus 로고    scopus 로고
    • Real-time optogenetic control of intracellular protein concentration in microbial cell cultures
    • Melendez J., Patel M., Oakes B.L., Xu P., Morton P., McClean M.N. Real-time optogenetic control of intracellular protein concentration in microbial cell cultures. Integr Biol (Camb) 2014, 6:366-372.
    • (2014) Integr Biol (Camb) , vol.6 , pp. 366-372
    • Melendez, J.1    Patel, M.2    Oakes, B.L.3    Xu, P.4    Morton, P.5    McClean, M.N.6
  • 58
    • 84882676796 scopus 로고    scopus 로고
    • Retroactivity controls the temporal dynamics of gene transcription
    • Jayanthi S., Nilgiriwala K.S., Del Vecchio D. Retroactivity controls the temporal dynamics of gene transcription. ACS Synth Biol 2013, 2:431-441.
    • (2013) ACS Synth Biol , vol.2 , pp. 431-441
    • Jayanthi, S.1    Nilgiriwala, K.S.2    Del Vecchio, D.3
  • 60
    • 84863322344 scopus 로고    scopus 로고
    • Contextualizing context for synthetic biology-identifying causes of failure of synthetic biological systems
    • Cardinale S., Arkin A.P. Contextualizing context for synthetic biology-identifying causes of failure of synthetic biological systems. Biotech J 2012, 7:856-866.
    • (2012) Biotech J , vol.7 , pp. 856-866
    • Cardinale, S.1    Arkin, A.P.2
  • 63
    • 70350324632 scopus 로고    scopus 로고
    • Emergent bistability by a growth-modulating positive feedback circuit
    • Tan C., Marguet P., You L. Emergent bistability by a growth-modulating positive feedback circuit. Nature Chem Biol 2009, 5:842-848.
    • (2009) Nature Chem Biol , vol.5 , pp. 842-848
    • Tan, C.1    Marguet, P.2    You, L.3
  • 65
    • 84896392369 scopus 로고    scopus 로고
    • The transcription factor titration effect dictates level of gene expression
    • Brewster R.C., Weinert F.M., Garcia H.G., Song D., Rydenfelt M., Phillips R. The transcription factor titration effect dictates level of gene expression. Cell 2014, 156:1312-1323.
    • (2014) Cell , vol.156 , pp. 1312-1323
    • Brewster, R.C.1    Weinert, F.M.2    Garcia, H.G.3    Song, D.4    Rydenfelt, M.5    Phillips, R.6
  • 66
    • 84880772006 scopus 로고    scopus 로고
    • Effects of genetic variation on the E. coli host-circuit interface
    • Cardinale S., Joachimiak M.P., Arkin A.P. Effects of genetic variation on the E. coli host-circuit interface. Cell Rep 2013, 4:231-237.
    • (2013) Cell Rep , vol.4 , pp. 231-237
    • Cardinale, S.1    Joachimiak, M.P.2    Arkin, A.P.3
  • 67
    • 84890217908 scopus 로고    scopus 로고
    • A wise consistency: engineering biology for conformity, reliability, predictability
    • Arkin A.P. A wise consistency: engineering biology for conformity, reliability, predictability. Curr Opin Chem Biol 2013, 17:893-901.
    • (2013) Curr Opin Chem Biol , vol.17 , pp. 893-901
    • Arkin, A.P.1
  • 68
    • 39149113411 scopus 로고    scopus 로고
    • Modular cell biology: retroactivity and insulation
    • Del Vecchio D., Ninfa A.J., Sontag E.D. Modular cell biology: retroactivity and insulation. Mol Syst Biol 2008, 4:161.
    • (2008) Mol Syst Biol , vol.4 , pp. 161
    • Del Vecchio, D.1    Ninfa, A.J.2    Sontag, E.D.3
  • 69
    • 79955753549 scopus 로고    scopus 로고
    • Transient activation of the HOG MAPK pathway regulates bimodal gene expression
    • Pelet S., Rudolf F., Nadal-Ribelles M., de Nadal E., Posas F., Peter M. Transient activation of the HOG MAPK pathway regulates bimodal gene expression. Science 2011, 332:732-735.
    • (2011) Science , vol.332 , pp. 732-735
    • Pelet, S.1    Rudolf, F.2    Nadal-Ribelles, M.3    de Nadal, E.4    Posas, F.5    Peter, M.6
  • 70
    • 18844457339 scopus 로고    scopus 로고
    • The use of oscillatory signals in the study of genetic networks
    • Lipan O., Wong W.H. The use of oscillatory signals in the study of genetic networks. Proc Natl Acad Sci USA 2005, 102:7063-7068.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 7063-7068
    • Lipan, O.1    Wong, W.H.2
  • 71
    • 78650908729 scopus 로고    scopus 로고
    • Probing the input-output behavior of biochemical and genetic systems system identification methods from control theory
    • Ang J., Ingalls B., McMillen D. Probing the input-output behavior of biochemical and genetic systems system identification methods from control theory. Meth Enzymol 2011, 487:279-317.
    • (2011) Meth Enzymol , vol.487 , pp. 279-317
    • Ang, J.1    Ingalls, B.2    McMillen, D.3
  • 72
    • 67349227164 scopus 로고    scopus 로고
    • Pulsing cells: how fast is too fast?
    • Paliwal S., Wang C.J., Levchenko A. Pulsing cells: how fast is too fast?. HFSP J 2008, 2:251-256.
    • (2008) HFSP J , vol.2 , pp. 251-256
    • Paliwal, S.1    Wang, C.J.2    Levchenko, A.3
  • 74
    • 84869456236 scopus 로고    scopus 로고
    • Modelling reveals novel roles of two parallel signalling pathways and homeostatic feedbacks in yeast
    • Schaber J., Baltanas R., Bush A., Klipp E., Colman-Lerner A. Modelling reveals novel roles of two parallel signalling pathways and homeostatic feedbacks in yeast. Mol Syst Biol 2012, 8:622.
    • (2012) Mol Syst Biol , vol.8 , pp. 622
    • Schaber, J.1    Baltanas, R.2    Bush, A.3    Klipp, E.4    Colman-Lerner, A.5
  • 75
    • 84865283318 scopus 로고    scopus 로고
    • Post-translational tools expand the scope of synthetic biology
    • Olson E.J., Tabor J.J. Post-translational tools expand the scope of synthetic biology. Curr Opin Chem Biol 2012, 16:300-306.
    • (2012) Curr Opin Chem Biol , vol.16 , pp. 300-306
    • Olson, E.J.1    Tabor, J.J.2
  • 76
    • 0034461764 scopus 로고    scopus 로고
    • Regulatable arabinose-inducible gene expression system with consistent control in all cells of a culture
    • Khlebnikov A., Risa Ø., Skaug T., Carrier T.A., Keasling J.D. Regulatable arabinose-inducible gene expression system with consistent control in all cells of a culture. J Bacteriol 2000, 182:7029-7034.
    • (2000) J Bacteriol , vol.182 , pp. 7029-7034
    • Khlebnikov, A.1    Risa, Ø.2    Skaug, T.3    Carrier, T.A.4    Keasling, J.D.5
  • 77
    • 33744955253 scopus 로고    scopus 로고
    • The regulatory roles of the galactose permease and kinase in the induction response of the GAL network in Saccharomyces cerevisiae
    • Hawkins K.M., Smolke C.D. The regulatory roles of the galactose permease and kinase in the induction response of the GAL network in Saccharomyces cerevisiae. J Biol Chem 2006, 281:13485-13492.
    • (2006) J Biol Chem , vol.281 , pp. 13485-13492
    • Hawkins, K.M.1    Smolke, C.D.2
  • 78
    • 63849203156 scopus 로고    scopus 로고
    • Positively regulated bacterial expression systems
    • Brautaset T., Lale R., Valla S. Positively regulated bacterial expression systems. Microb Biotechnol 2009, 2:15-30.
    • (2009) Microb Biotechnol , vol.2 , pp. 15-30
    • Brautaset, T.1    Lale, R.2    Valla, S.3
  • 79
    • 84890036078 scopus 로고    scopus 로고
    • Using optogenetics to interrogate the dynamic control of signal transmission by the Ras/Erk module
    • Toettcher J.E., Weiner O.D., Lim W.A. Using optogenetics to interrogate the dynamic control of signal transmission by the Ras/Erk module. Cell 2013, 155:1422-1434.
    • (2013) Cell , vol.155 , pp. 1422-1434
    • Toettcher, J.E.1    Weiner, O.D.2    Lim, W.A.3
  • 80
    • 36249017917 scopus 로고    scopus 로고
    • Programming gene expression with combinatorial promoters
    • Cox R.S., Surette M.G., Elowitz M.B. Programming gene expression with combinatorial promoters. Mol Syst Biol 2007, 3:145.
    • (2007) Mol Syst Biol , vol.3 , pp. 145
    • Cox, R.S.1    Surette, M.G.2    Elowitz, M.B.3
  • 81
    • 78649866559 scopus 로고    scopus 로고
    • Comparison of different Bacillus subtilis expression systems
    • Vavrová L., Muchová K., Barák I. Comparison of different Bacillus subtilis expression systems. Res Microbiol 2010, 161:791-797.
    • (2010) Res Microbiol , vol.161 , pp. 791-797
    • Vavrová, L.1    Muchová, K.2    Barák, I.3
  • 82
    • 85027954689 scopus 로고    scopus 로고
    • The synthetic biology toolbox for tuning gene expression in yeast
    • Redden H., Morse N., Alper H.S. The synthetic biology toolbox for tuning gene expression in yeast. FEMS Yeast Res 2014, 10.1111/1567-1364.12188.
    • (2014) FEMS Yeast Res
    • Redden, H.1    Morse, N.2    Alper, H.S.3
  • 83
    • 0030861452 scopus 로고    scopus 로고
    • Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-I2 regulatory elements
    • Lutz R., Bujard H. Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-I2 regulatory elements. Nucleic Acids Res 1997, 25:1203-1210.
    • (1997) Nucleic Acids Res , vol.25 , pp. 1203-1210
    • Lutz, R.1    Bujard, H.2
  • 84
    • 0020649604 scopus 로고
    • The tac promoter: a functional hybrid derived from the trp and lac promoters
    • de Boer H.A., Comstock L.J., Vasser M. The tac promoter: a functional hybrid derived from the trp and lac promoters. Proc Natl Acad Sci USA 1983, 80:21-25.
    • (1983) Proc Natl Acad Sci USA , vol.80 , pp. 21-25
    • de Boer, H.A.1    Comstock, L.J.2    Vasser, M.3
  • 86
    • 58549105950 scopus 로고    scopus 로고
    • Design and signaling mechanism of light-regulated histidine kinases
    • Möglich A., Ayers R.A., Moffat K. Design and signaling mechanism of light-regulated histidine kinases. J Mol Biol 2009, 385:1433-1444.
    • (2009) J Mol Biol , vol.385 , pp. 1433-1444
    • Möglich, A.1    Ayers, R.A.2    Moffat, K.3
  • 87
    • 84857371657 scopus 로고    scopus 로고
    • From dusk till dawn: one-plasmid systems for light-regulated gene expression
    • Ohlendorf R., Vidavski R.R., Eldar A., Moffat K., Möglich A. From dusk till dawn: one-plasmid systems for light-regulated gene expression. J Mol Biol 2012, 416:534-542.
    • (2012) J Mol Biol , vol.416 , pp. 534-542
    • Ohlendorf, R.1    Vidavski, R.R.2    Eldar, A.3    Moffat, K.4    Möglich, A.5
  • 88
    • 78650896342 scopus 로고    scopus 로고
    • Multichromatic control of gene expression in Escherichia coli
    • Tabor J.J., Levskaya A., Voigt C.A. Multichromatic control of gene expression in Escherichia coli. J Mol Biol 2011, 405:315-324.
    • (2011) J Mol Biol , vol.405 , pp. 315-324
    • Tabor, J.J.1    Levskaya, A.2    Voigt, C.A.3
  • 91
    • 84904314045 scopus 로고    scopus 로고
    • Near-infrared light responsive synthetic c-di-GMP module for optogenetic applications
    • Ryu M.-H., Gomelsky M. Near-infrared light responsive synthetic c-di-GMP module for optogenetic applications. ACS Synth Biol 2014, 10.1021/sb400182x.
    • (2014) ACS Synth Biol
    • Ryu, M.-H.1    Gomelsky, M.2
  • 92
    • 84912094821 scopus 로고    scopus 로고
    • Refactoring and optimization of light-switchable Escherichia coli two-component systems
    • Schmidl S.R., Sheth R.U., Wu A., Tabor J.J. Refactoring and optimization of light-switchable Escherichia coli two-component systems. ACS Synth Biol 2014, 3:820-831.
    • (2014) ACS Synth Biol , vol.3 , pp. 820-831
    • Schmidl, S.R.1    Sheth, R.U.2    Wu, A.3    Tabor, J.J.4
  • 98
    • 84883190708 scopus 로고    scopus 로고
    • Light-inducible system for tunable protein expression in Neurospora crassa
    • Hurley J.M., Chen C.-H., Loros J.J., Dunlap J.C. Light-inducible system for tunable protein expression in Neurospora crassa. G3 (Bethesda) 2012, 2:1207-1212.
    • (2012) G3 (Bethesda) , vol.2 , pp. 1207-1212
    • Hurley, J.M.1    Chen, C.-H.2    Loros, J.J.3    Dunlap, J.C.4
  • 99
    • 84876461247 scopus 로고    scopus 로고
    • A LOV2 domain-based optogenetic tool to control protein degradation and cellular function
    • Renicke C., Schuster D., Usherenko S., Essen L.-O., Taxis C. A LOV2 domain-based optogenetic tool to control protein degradation and cellular function. Chem Biol 2013, 20:619-626.
    • (2013) Chem Biol , vol.20 , pp. 619-626
    • Renicke, C.1    Schuster, D.2    Usherenko, S.3    Essen, L.-O.4    Taxis, C.5
  • 101
    • 84904480201 scopus 로고    scopus 로고
    • Engineering light-inducible nuclear localization signals for precise spatiotemporal control of protein dynamics in living cells
    • Niopek D., Benzinger D., Roensch J., Draebing T., Wehler P., Eils R., Di Ventura B. Engineering light-inducible nuclear localization signals for precise spatiotemporal control of protein dynamics in living cells. Nat Commun 2014, 5:4404.
    • (2014) Nat Commun , vol.5 , pp. 4404
    • Niopek, D.1    Benzinger, D.2    Roensch, J.3    Draebing, T.4    Wehler, P.5    Eils, R.6    Di Ventura, B.7
  • 103
    • 84886719115 scopus 로고    scopus 로고
    • Programming microbes using pulse width modulation of optical signals
    • Davidson E.A., Basu A.S., Bayer T.S. Programming microbes using pulse width modulation of optical signals. J Mol Biol 2013, 425:4161-4166.
    • (2013) J Mol Biol , vol.425 , pp. 4161-4166
    • Davidson, E.A.1    Basu, A.S.2    Bayer, T.S.3
  • 104
    • 84912126207 scopus 로고    scopus 로고
    • A low cost, customizable turbidostat for use in synthetic circuit characterization
    • Takahashi C.N., Miller A.W., Ekness F., Dunham M.J., Klavins E. A low cost, customizable turbidostat for use in synthetic circuit characterization. ACS Synth Biol 2014, 34:15-22.
    • (2014) ACS Synth Biol , vol.34 , pp. 15-22
    • Takahashi, C.N.1    Miller, A.W.2    Ekness, F.3    Dunham, M.J.4    Klavins, E.5
  • 105
    • 68949215494 scopus 로고    scopus 로고
    • Microfluidic devices for measuring gene network dynamics in single cells
    • Bennett M.R., Hasty J. Microfluidic devices for measuring gene network dynamics in single cells. Nat Rev Genet 2009, 10:628-638.
    • (2009) Nat Rev Genet , vol.10 , pp. 628-638
    • Bennett, M.R.1    Hasty, J.2
  • 106
    • 84865285684 scopus 로고    scopus 로고
    • Microfluidic technologies for studying synthetic circuits
    • Lin B., Levchenko A. Microfluidic technologies for studying synthetic circuits. Curr Opin Chem Biol 2012, 16:307-317.
    • (2012) Curr Opin Chem Biol , vol.16 , pp. 307-317
    • Lin, B.1    Levchenko, A.2
  • 108
    • 84919778720 scopus 로고    scopus 로고
    • Sequential feedback induction stabilizes the phosphate starvation response in budding yeast
    • Vardi N., Levy S., Gurvich Y., Polacheck T., Carmi M., Jaitin D., Amit I., Barkai N. Sequential feedback induction stabilizes the phosphate starvation response in budding yeast. Cell Rep 2014, 9:1122-1134.
    • (2014) Cell Rep , vol.9 , pp. 1122-1134
    • Vardi, N.1    Levy, S.2    Gurvich, Y.3    Polacheck, T.4    Carmi, M.5    Jaitin, D.6    Amit, I.7    Barkai, N.8
  • 110
    • 84903287428 scopus 로고    scopus 로고
    • A microfluidic system for studying ageing and dynamic single-cell responses in budding yeast
    • Crane M.M., Clark I.B.N., Bakker E., Smith S., Swain P.S. A microfluidic system for studying ageing and dynamic single-cell responses in budding yeast. PLoS ONE 2014, 9:e100042.
    • (2014) PLoS ONE , vol.9 , pp. e100042
    • Crane, M.M.1    Clark, I.B.N.2    Bakker, E.3    Smith, S.4    Swain, P.S.5
  • 112
    • 34250155259 scopus 로고    scopus 로고
    • Nucleocytoplasmic oscillations of the yeast transcription factor Msn2: evidence for periodic PKA activation
    • Garmendia-Torres C., Goldbeter A., Jacquet M. Nucleocytoplasmic oscillations of the yeast transcription factor Msn2: evidence for periodic PKA activation. Curr Biol 2007, 17:1044-1049.
    • (2007) Curr Biol , vol.17 , pp. 1044-1049
    • Garmendia-Torres, C.1    Goldbeter, A.2    Jacquet, M.3
  • 113
    • 0029879360 scopus 로고    scopus 로고
    • The Saccharomyces cerevisiae zinc finger proteins Msn2p and Msn4p are required for transcriptional induction through the stress response element (STRE)
    • Martínez-Pastor M.T., Marchler G., Schüller C., Marchler-Bauer A., Ruis H., Estruch F. The Saccharomyces cerevisiae zinc finger proteins Msn2p and Msn4p are required for transcriptional induction through the stress response element (STRE). EMBO J 1996, 15:2227-2235.
    • (1996) EMBO J , vol.15 , pp. 2227-2235
    • Martínez-Pastor, M.T.1    Marchler, G.2    Schüller, C.3    Marchler-Bauer, A.4    Ruis, H.5    Estruch, F.6
  • 114
    • 52949098296 scopus 로고    scopus 로고
    • Frequency-modulated nuclear localization bursts coordinate gene regulation
    • Cai L., Dalal C.K., Elowitz M.B. Frequency-modulated nuclear localization bursts coordinate gene regulation. Nature 2008, 455:485-490.
    • (2008) Nature , vol.455 , pp. 485-490
    • Cai, L.1    Dalal, C.K.2    Elowitz, M.B.3
  • 118
    • 70350070364 scopus 로고    scopus 로고
    • Spatiotemporal control of cell signalling using a light-switchable protein interaction
    • Levskaya A., Weiner O.D., Lim W.A., Voigt C.A. Spatiotemporal control of cell signalling using a light-switchable protein interaction. Nature 2009, 461:997-1001.
    • (2009) Nature , vol.461 , pp. 997-1001
    • Levskaya, A.1    Weiner, O.D.2    Lim, W.A.3    Voigt, C.A.4
  • 119
    • 80053347082 scopus 로고    scopus 로고
    • Light-based feedback for controlling intracellular signaling dynamics
    • Toettcher J.E., Gong D., Lim W.A., Weiner O.D. Light-based feedback for controlling intracellular signaling dynamics. Nat Methods 2011, 8:837-839.
    • (2011) Nat Methods , vol.8 , pp. 837-839
    • Toettcher, J.E.1    Gong, D.2    Lim, W.A.3    Weiner, O.D.4
  • 120
    • 84874687019 scopus 로고    scopus 로고
    • Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression
    • Qi L.S., Larson M.H., Gilbert L.A., Doudna J.A., Weissman J.S., Arkin A.P., Lim W.A. Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression. Cell 2013, 152:1173-1183.
    • (2013) Cell , vol.152 , pp. 1173-1183
    • Qi, L.S.1    Larson, M.H.2    Gilbert, L.A.3    Doudna, J.A.4    Weissman, J.S.5    Arkin, A.P.6    Lim, W.A.7
  • 122
    • 84882986957 scopus 로고    scopus 로고
    • Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system
    • Bikard D., Jiang W., Samai P., Hochschild A., Zhang F., Marraffini L.A. Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system. Nucleic Acids Res 2013, 41:7429-7437.
    • (2013) Nucleic Acids Res , vol.41 , pp. 7429-7437
    • Bikard, D.1    Jiang, W.2    Samai, P.3    Hochschild, A.4    Zhang, F.5    Marraffini, L.A.6
  • 123
    • 84886488970 scopus 로고    scopus 로고
    • Tunable and multifunctional eukaryotic transcription factors based on CRISPR/Cas
    • Farzadfard F., Perli S.D., Lu T.K. Tunable and multifunctional eukaryotic transcription factors based on CRISPR/Cas. ACS Synth Biol 2013, 2:604-613.
    • (2013) ACS Synth Biol , vol.2 , pp. 604-613
    • Farzadfard, F.1    Perli, S.D.2    Lu, T.K.3
  • 124
    • 47749102135 scopus 로고    scopus 로고
    • Cyanobacteriochrome CcaS is the green light receptor that induces the expression of phycobilisome linker protein
    • Hirose Y., Shimada T., Narikawa R., Katayama M., Ikeuchi M. Cyanobacteriochrome CcaS is the green light receptor that induces the expression of phycobilisome linker protein. Proc Natl Acad Sci USA 2008, 105:9528-9533.
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 9528-9533
    • Hirose, Y.1    Shimada, T.2    Narikawa, R.3    Katayama, M.4    Ikeuchi, M.5
  • 125
    • 84907551049 scopus 로고    scopus 로고
    • Hog1: 20 years of discovery and impact
    • Brewster J.L., Gustin M.C. Hog1: 20 years of discovery and impact. Sci Signal 2014, 7:re7.
    • (2014) Sci Signal , vol.7 , pp. re7
    • Brewster, J.L.1    Gustin, M.C.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.