-
1
-
-
34249079154
-
Network motifs: theory and experimental approaches
-
PID: 17510665
-
Alon U (2007) Network motifs: theory and experimental approaches. Nat Rev Genet 8:450–461
-
(2007)
Nat Rev Genet
, vol.8
, pp. 450-461
-
-
Alon, U.1
-
2
-
-
50249115104
-
Dynamic metabolic engineering for increasing bioprocess productivity
-
PID: 18606241
-
Anesiadis N, Cluett WR, Mahadevan R (2008) Dynamic metabolic engineering for increasing bioprocess productivity. Metab Eng 10:255–266
-
(2008)
Metab Eng
, vol.10
, pp. 255-266
-
-
Anesiadis, N.1
Cluett, W.R.2
Mahadevan, R.3
-
3
-
-
84886456692
-
Tuning response curves for synthetic biology
-
PID: 23905721
-
Ang J, Harris E, Hussey BJ, Kil R, McMillen DR (2013) Tuning response curves for synthetic biology. ACS Synth Biol 2:547–567
-
(2013)
ACS Synth Biol
, vol.2
, pp. 547-567
-
-
Ang, J.1
Harris, E.2
Hussey, B.J.3
Kil, R.4
McMillen, D.R.5
-
5
-
-
77955500520
-
Riboswitch function: flipping the switch or tuning the dimmer?
-
PID: 20458165
-
Baird NJ, Kulshina N, Ferré-D’Amaré AR (2010) Riboswitch function: flipping the switch or tuning the dimmer? RNA Biol 7:328–332
-
(2010)
RNA Biol
, vol.7
, pp. 328-332
-
-
Baird, N.J.1
Kulshina, N.2
Ferré-D’Amaré, A.R.3
-
6
-
-
66249084560
-
Design principles for riboswitch function
-
PID: 19381267
-
Beisel CL, Smolke CD (2009) Design principles for riboswitch function. PLoS Comput Biol 5:e1000363
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Beisel, C.L.1
Smolke, C.D.2
-
7
-
-
84922652279
-
RNA aptamers as genetic control devices: the potential of riboswitches as synthetic elements for regulating gene expression
-
PID: 25676052
-
Berens C, Groher F, Suess B (2015) RNA aptamers as genetic control devices: the potential of riboswitches as synthetic elements for regulating gene expression. Biotechnol J 10:246–257
-
(2015)
Biotechnol J
, vol.10
, pp. 246-257
-
-
Berens, C.1
Groher, F.2
Suess, B.3
-
8
-
-
84979993746
-
Overloaded and stressed: whole-cell considerations for bacterial synthetic biology
-
PID: 27494248
-
Borkowski O, Ceroni F, Stan G-B, Ellis T (2016) Overloaded and stressed: whole-cell considerations for bacterial synthetic biology. Curr Opin Microbiol 33:123–130
-
(2016)
Curr Opin Microbiol
, vol.33
, pp. 123-130
-
-
Borkowski, O.1
Ceroni, F.2
Stan, G.-B.3
Ellis, T.4
-
9
-
-
84872019085
-
Tuning promoter strength through RNA polymerase binding site design in Escherichia coli
-
PID: 23271961
-
Brewster RC, Jones DL, Phillips R (2012) Tuning promoter strength through RNA polymerase binding site design in Escherichia coli. PLoS Comput Biol 8:e1002811
-
(2012)
PLoS Comput Biol
, vol.8
-
-
Brewster, R.C.1
Jones, D.L.2
Phillips, R.3
-
10
-
-
84899694320
-
Principles of genetic circuit design
-
PID: 24781324
-
Brophy JAN, Voigt CA (2014) Principles of genetic circuit design. Nat Methods 11:508–520
-
(2014)
Nat Methods
, vol.11
, pp. 508-520
-
-
Brophy, J.A.N.1
Voigt, C.A.2
-
11
-
-
0242487787
-
Optknock: a bilevel programming framework for identifying gene knockout strategies for microbial strain optimization
-
PID: 14595777
-
Burgard AP, Pharkya P, Maranas CD (2003) Optknock: a bilevel programming framework for identifying gene knockout strategies for microbial strain optimization. Biotechnol Bioeng 84:647–657
-
(2003)
Biotechnol Bioeng
, vol.84
, pp. 647-657
-
-
Burgard, A.P.1
Pharkya, P.2
Maranas, C.D.3
-
12
-
-
84863322344
-
Contextualizing context for synthetic biology–identifying causes of failure of synthetic biological systems
-
PID: 22649052
-
Cardinale S, Arkin AP (2012) Contextualizing context for synthetic biology–identifying causes of failure of synthetic biological systems. Biotechnol J 7:856–866
-
(2012)
Biotechnol J
, vol.7
, pp. 856-866
-
-
Cardinale, S.1
Arkin, A.P.2
-
13
-
-
85031911259
-
Computational design of Small Transcription Activating RNAs (STARs) for versatile and dynamic gene regulation
-
PID: 29051490
-
Chappell J, Westbrook A, Verosloff M, Lucks J (2017) Computational design of Small Transcription Activating RNAs (STARs) for versatile and dynamic gene regulation. Nat Commun 8:1051
-
(2017)
Nat Commun
, vol.8
, pp. 1051
-
-
Chappell, J.1
Westbrook, A.2
Verosloff, M.3
Lucks, J.4
-
14
-
-
0037025146
-
Dynamic modeling of the central carbon metabolism of Escherichia coli
-
PID: 17590932
-
Chassagnole C, Noisommit-Rizzi N, Schmid JW, Mauch K, Reuss M (2002) Dynamic modeling of the central carbon metabolism of Escherichia coli. Biotechnol Bioeng 79:53–73
-
(2002)
Biotechnol Bioeng
, vol.79
, pp. 53-73
-
-
Chassagnole, C.1
Noisommit-Rizzi, N.2
Schmid, J.W.3
Mauch, K.4
Reuss, M.5
-
15
-
-
45849120994
-
Dynamics and design principles of a basic regulatory architecture controlling metabolic pathways
-
PID: 18563967
-
Chin C-S, Chubukov V, Jolly ER, DeRisi J, Li H (2008) Dynamics and design principles of a basic regulatory architecture controlling metabolic pathways. PLoS Biol 6:e146
-
(2008)
PLoS Biol
, vol.6
-
-
Chin, C.-S.1
Chubukov, V.2
Jolly, E.R.3
DeRisi, J.4
Li, H.5
-
17
-
-
84859471521
-
Regulatory architecture determines optimal regulation of gene expression in metabolic pathways
-
PID: 22416120
-
Chubukov V, Zuleta IA, Li H (2012) Regulatory architecture determines optimal regulation of gene expression in metabolic pathways. Proc Natl Acad Sci USA 109:5127–5132
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. 5127-5132
-
-
Chubukov, V.1
Zuleta, I.A.2
Li, H.3
-
18
-
-
84887422015
-
Engineering dynamic pathway regulation using stress-response promoters
-
PID: 24142050
-
Dahl RH, Zhang F, Alonso-Gutierrez J, Baidoo E, Batth TS, Redding-Johanson AM, Petzold CJ, Mukhopadhyay A, Lee TS, Adams PD, Keasling JD (2013) Engineering dynamic pathway regulation using stress-response promoters. Nat Biotechnol 31:1039–1046
-
(2013)
Nat Biotechnol
, vol.31
, pp. 1039-1046
-
-
Dahl, R.H.1
Zhang, F.2
Alonso-Gutierrez, J.3
Baidoo, E.4
Batth, T.S.5
Redding-Johanson, A.M.6
Petzold, C.J.7
Mukhopadhyay, A.8
Lee, T.S.9
Adams, P.D.10
Keasling, J.D.11
-
19
-
-
84983020502
-
Control theory meets synthetic biology
-
Del Vecchio D, Dy AJ, Qian Y (2016) Control theory meets synthetic biology. J R Soc Interface 13(120). https://doi.org/10.1098/rsif.2016.0380
-
(2016)
J R Soc Interface
, vol.13
, Issue.120
-
-
Del Vecchio, D.1
Dy, A.J.2
Qian, Y.3
-
20
-
-
84918573843
-
Metabolic variability in bioprocessing: implications of microbial phenotypic heterogeneity
-
PID: 25457387
-
Delvigne F, Zune Q, Lara AR, Al-Soud W, Sørensen SJ (2014) Metabolic variability in bioprocessing: implications of microbial phenotypic heterogeneity. Trends Biotechnol 32:608–616
-
(2014)
Trends Biotechnol
, vol.32
, pp. 608-616
-
-
Delvigne, F.1
Zune, Q.2
Lara, A.R.3
Al-Soud, W.4
Sørensen, S.J.5
-
21
-
-
77955852574
-
A model for improving microbial biofuel production using a synthetic feedback loop
-
PID: 20805930
-
Dunlop MJ, Keasling JD, Mukhopadhyay A (2010) A model for improving microbial biofuel production using a synthetic feedback loop. Syst Synth Biol 4:95–104
-
(2010)
Syst Synth Biol
, vol.4
, pp. 95-104
-
-
Dunlop, M.J.1
Keasling, J.D.2
Mukhopadhyay, A.3
-
22
-
-
0034024497
-
Improving lycopene production in Escherichia coli by engineering metabolic control
-
PID: 10802621
-
Farmer WR, Liao JC (2000) Improving lycopene production in Escherichia coli by engineering metabolic control. Nat Biotechnol 18:533–537
-
(2000)
Nat Biotechnol
, vol.18
, pp. 533-537
-
-
Farmer, W.R.1
Liao, J.C.2
-
23
-
-
0028801765
-
Metabolic load and heterologous gene expression
-
PID: 14537822
-
Glick BR (1995) Metabolic load and heterologous gene expression. Biotechnol Adv 13:247–261
-
(1995)
Biotechnol Adv
, vol.13
, pp. 247-261
-
-
Glick, B.R.1
-
24
-
-
85014739781
-
Dynamic regulation of metabolic flux in engineered bacteria using a pathway-independent quorum-sensing circuit
-
PID: 28191902
-
Gupta A, Reizman IMB, Reisch CR, Prather KLJ (2017) Dynamic regulation of metabolic flux in engineered bacteria using a pathway-independent quorum-sensing circuit. Nat Biotechnol 35:273–279
-
(2017)
Nat Biotechnol
, vol.35
, pp. 273-279
-
-
Gupta, A.1
Reizman, I.M.B.2
Reisch, C.R.3
Prather, K.L.J.4
-
25
-
-
85016775880
-
Interrogating the topological robustness of gene regulatory circuits by randomization
-
PID: 28362798
-
Huang B, Lu M, Jia D, Ben-Jacob E, Levine H, Onuchic JN (2017) Interrogating the topological robustness of gene regulatory circuits by randomization. PLoS Comput Biol 13:e1005456
-
(2017)
PLoS Comput Biol
, vol.13
-
-
Huang, B.1
Lu, M.2
Jia, D.3
Ben-Jacob, E.4
Levine, H.5
Onuchic, J.N.6
-
26
-
-
85033377059
-
Development of artificial riboswitches for monitoring of naringenin in vivo
-
PID: 28749656
-
Jang S, Jang S, Xiu Y, Kang TJ, Lee S-H, Koffas MAG, Jung GY (2017) Development of artificial riboswitches for monitoring of naringenin in vivo. ACS Synth Biol 6(11):2077–2085
-
(2017)
ACS Synth Biol
, vol.6
, Issue.11
, pp. 2077-2085
-
-
Jang, S.1
Jang, S.2
Xiu, Y.3
Kang, T.J.4
Lee, S.-H.5
Koffas, M.A.G.6
Jung, G.Y.7
-
27
-
-
78649975647
-
Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification
-
PID: 21092096
-
Kadir T, Mannan AA, Kierzek AM, McFadden J, Shimizu K (2010) Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification. Microb Cell Fact 9:88
-
(2010)
Microb Cell Fact
, vol.9
, pp. 88
-
-
Kadir, T.1
Mannan, A.A.2
Kierzek, A.M.3
McFadden, J.4
Shimizu, K.5
-
28
-
-
84908191393
-
Stochasticity of metabolism and growth at the single-cell level
-
PID: 25186725
-
Kiviet DJ, Nghe P, Walker N, Boulineau S, Sunderlikova V, Tans SJ (2014) Stochasticity of metabolism and growth at the single-cell level. Nature 514:376–379
-
(2014)
Nature
, vol.514
, pp. 376-379
-
-
Kiviet, D.J.1
Nghe, P.2
Walker, N.3
Boulineau, S.4
Sunderlikova, V.5
Tans, S.J.6
-
29
-
-
84887626141
-
Somewhat in control–the role of transcription in regulating microbial metabolic fluxes
-
PID: 23571096
-
Kochanowski K, Sauer U, Chubukov V (2013) Somewhat in control–the role of transcription in regulating microbial metabolic fluxes. Curr Opin Biotechnol 24:987–993
-
(2013)
Curr Opin Biotechnol
, vol.24
, pp. 987-993
-
-
Kochanowski, K.1
Sauer, U.2
Chubukov, V.3
-
30
-
-
84930642844
-
Posttranslational regulation of microbial metabolism
-
PID: 26048423
-
Kochanowski K, Sauer U, Noor E (2015) Posttranslational regulation of microbial metabolism. Curr Opin Microbiol 27:10–17
-
(2015)
Curr Opin Microbiol
, vol.27
, pp. 10-17
-
-
Kochanowski, K.1
Sauer, U.2
Noor, E.3
-
31
-
-
84905395314
-
Phenotypic bistability in Escherichia coli’s central carbon metabolism
-
PID: 24987115
-
Kotte O, Volkmer B, Radzikowski JL, Heinemann M (2014) Phenotypic bistability in Escherichia coli’s central carbon metabolism. Mol Syst Biol 10:736
-
(2014)
Mol Syst Biol
, vol.10
, pp. 736
-
-
Kotte, O.1
Volkmer, B.2
Radzikowski, J.L.3
Heinemann, M.4
-
32
-
-
85031668813
-
Improved kinetic model of Escherichia coli central carbon metabolism in batch and continuous cultures
-
PID: 29054464
-
Kurata H, Sugimoto Y (2018) Improved kinetic model of Escherichia coli central carbon metabolism in batch and continuous cultures. J Biosci Bioeng 125(2):251–257
-
(2018)
J Biosci Bioeng
, vol.125
, Issue.2
, pp. 251-257
-
-
Kurata, H.1
Sugimoto, Y.2
-
33
-
-
84882748254
-
Heterogeneity in protein expression induces metabolic variability in a modeled Escherichia coli population
-
PID: 23908403
-
Labhsetwar P, Cole JA, Roberts E, Price ND, Luthey-Schulten ZA (2013) Heterogeneity in protein expression induces metabolic variability in a modeled Escherichia coli population. Proc Natl Acad Sci 110:14006–14011
-
(2013)
Proc Natl Acad Sci
, vol.110
, pp. 14006-14011
-
-
Labhsetwar, P.1
Cole, J.A.2
Roberts, E.3
Price, N.D.4
Luthey-Schulten, Z.A.5
-
34
-
-
85029795822
-
An integrative circuit–host modelling framework for predicting synthetic gene network behaviours
-
PID: 28947816
-
Liao C, Blanchard AE, Lu T (2017) An integrative circuit–host modelling framework for predicting synthetic gene network behaviours. Nat Microbiol 2:1658–1666
-
(2017)
Nat Microbiol
, vol.2
, pp. 1658-1666
-
-
Liao, C.1
Blanchard, A.E.2
Lu, T.3
-
35
-
-
84986247556
-
Applications and advances of metabolite biosensors for metabolic engineering
-
PID: 26142692
-
Liu D, Evans T, Zhang F (2015) Applications and advances of metabolite biosensors for metabolic engineering. Metab Eng 31:35–43
-
(2015)
Metab Eng
, vol.31
, pp. 35-43
-
-
Liu, D.1
Evans, T.2
Zhang, F.3
-
36
-
-
84885368652
-
Bridging the gap between systems biology and synthetic biology
-
PID: 23898328
-
Liu D, Hoynes-O’Connor A, Zhang F (2013) Bridging the gap between systems biology and synthetic biology. Front Microbiol 4:211
-
(2013)
Front Microbiol
, vol.4
, pp. 211
-
-
Liu, D.1
Hoynes-O’Connor, A.2
Zhang, F.3
-
37
-
-
84924239544
-
Negative feedback regulation of fatty acid production based on a malonyl-CoA sensor-actuator
-
PID: 24377365
-
Liu D, Xiao Y, Evans BS, Zhang F (2015) Negative feedback regulation of fatty acid production based on a malonyl-CoA sensor-actuator. ACS Synth Biol 4:132–140
-
(2015)
ACS Synth Biol
, vol.4
, pp. 132-140
-
-
Liu, D.1
Xiao, Y.2
Evans, B.S.3
Zhang, F.4
-
38
-
-
85042192026
-
Metabolic feedback circuits provide rapid control of metabolite dynamics
-
Liu D, Zhang F (2018) Metabolic feedback circuits provide rapid control of metabolite dynamics. ACS Synth Biol. https://doi.org/10.1021/acssynbio.7b00342
-
(2018)
ACS Synth Biol
-
-
Liu, D.1
Zhang, F.2
-
39
-
-
85010187554
-
A two-layer gene circuit for decoupling cell growth from metabolite production
-
PID: 27559924
-
Lo T-M, Chng SH, Teo WS, Cho H-S, Chang MW (2016) A two-layer gene circuit for decoupling cell growth from metabolite production. Cell Syst 3:133–143
-
(2016)
Cell Syst
, vol.3
, pp. 133-143
-
-
Lo, T.-M.1
Chng, S.H.2
Teo, W.S.3
Cho, H.-S.4
Chang, M.W.5
-
40
-
-
84952978551
-
Transcription factor-based biosensors in biotechnology: current state and future prospects
-
PID: 26521244
-
Mahr R, Frunzke J (2016) Transcription factor-based biosensors in biotechnology: current state and future prospects. Appl Microbiol Biotechnol 100:79–90
-
(2016)
Appl Microbiol Biotechnol
, vol.100
, pp. 79-90
-
-
Mahr, R.1
Frunzke, J.2
-
41
-
-
85031897610
-
Fundamental design principles for transcription-factor-based metabolite biosensors
-
PID: 28763198
-
Mannan AA, Liu D, Zhang F, Oyarzún DA (2017) Fundamental design principles for transcription-factor-based metabolite biosensors. ACS Synth Biol 6(10):1851–1859
-
(2017)
ACS Synth Biol
, vol.6
, Issue.10
, pp. 1851-1859
-
-
Mannan, A.A.1
Liu, D.2
Zhang, F.3
Oyarzún, D.A.4
-
42
-
-
84949035832
-
Integrating kinetic model of E. coli with genome scale metabolic fluxes overcomes its open system problem and reveals bistability in central metabolism
-
PID: 26469081
-
Mannan AA, Toya Y, Shimizu K, McFadden J, Kierzek AM, Rocco A (2015) Integrating kinetic model of E. coli with genome scale metabolic fluxes overcomes its open system problem and reveals bistability in central metabolism. PLoS One 10:e0139507
-
(2015)
PLoS One
, vol.10
-
-
Mannan, A.A.1
Toya, Y.2
Shimizu, K.3
McFadden, J.4
Kierzek, A.M.5
Rocco, A.6
-
43
-
-
0038391517
-
Engineering a mevalonate pathway in Escherichia coli for production of terpenoids
-
PID: 12778056
-
Martin VJJ, Pitera DJ, Withers ST, Newman JD, Keasling JD (2003) Engineering a mevalonate pathway in Escherichia coli for production of terpenoids. Nat Biotechnol 21:796–802
-
(2003)
Nat Biotechnol
, vol.21
, pp. 796-802
-
-
Martin, V.J.J.1
Pitera, D.J.2
Withers, S.T.3
Newman, J.D.4
Keasling, J.D.5
-
44
-
-
84954170312
-
Design of a bistable switch to control cellular uptake
-
PID: 26674196
-
Oyarzún DA, Chaves M (2015) Design of a bistable switch to control cellular uptake. J R Soc Interface 12:20150618
-
(2015)
J R Soc Interface
, vol.12
, pp. 20150618
-
-
Oyarzún, D.A.1
Chaves, M.2
-
45
-
-
70350400430
-
Sequential activation of metabolic pathways: a dynamic optimization approach
-
PID: 19412635
-
Oyarzún DA, Ingalls BP, Middleton RH, Kalamatianos D (2009) Sequential activation of metabolic pathways: a dynamic optimization approach. Bull Math Biol 71:1851–1872
-
(2009)
Bull Math Biol
, vol.71
, pp. 1851-1872
-
-
Oyarzún, D.A.1
Ingalls, B.P.2
Middleton, R.H.3
Kalamatianos, D.4
-
46
-
-
84924249049
-
Noise propagation in synthetic gene circuits for metabolic control
-
PID: 24735052
-
Oyarzún DA, Lugagne J-B, Stan G-BV (2015) Noise propagation in synthetic gene circuits for metabolic control. ACS Synth Biol 4:116–125
-
(2015)
ACS Synth Biol
, vol.4
, pp. 116-125
-
-
Oyarzún, D.A.1
Lugagne, J.-B.2
Stan, G.-B.V.3
-
47
-
-
84871347056
-
Synthetic gene circuits for metabolic control: design trade-offs and constraints
-
PID: 23054953
-
Oyarzún DA, Stan G-BV (2013) Synthetic gene circuits for metabolic control: design trade-offs and constraints. J R Soc Interface 10:20120671
-
(2013)
J R Soc Interface
, vol.10
, pp. 20120671
-
-
Oyarzún, D.A.1
Stan, G.-B.V.2
-
48
-
-
84876784070
-
High-level semi-synthetic production of the potent antimalarial artemisinin
-
PID: 23575629
-
Paddon CJ, Westfall PJ, Pitera DJ, Benjamin K, Fisher K, McPhee D, Leavell MD, Tai A, Main A, Eng D, Polichuk DR, Teoh KH, Reed DW, Treynor T, Lenihan J, Fleck M, Bajad S, Dang G, Dengrove D, Diola D, Dorin G, Ellens KW, Fickes S, Galazzo J, Gaucher SP, Geistlinger T, Henry R, Hepp M, Horning T, Iqbal T, Jiang H, Kizer L, Lieu B, Melis D, Moss N, Regentin R, Secrest S, Tsuruta H, Vazquez R, Westblade LF, Xu L, Yu M, Zhang Y, Zhao L, Lievense J, Covello PS, Keasling JD, Reiling KK, Renninger NS, Newman JD (2013) High-level semi-synthetic production of the potent antimalarial artemisinin. Nature 496:528–532
-
(2013)
Nature
, vol.496
, pp. 528-532
-
-
Paddon, C.J.1
Westfall, P.J.2
Pitera, D.J.3
Benjamin, K.4
Fisher, K.5
McPhee, D.6
Leavell, M.D.7
Tai, A.8
Main, A.9
Eng, D.10
Polichuk, D.R.11
Teoh, K.H.12
Reed, D.W.13
Treynor, T.14
Lenihan, J.15
Fleck, M.16
Bajad, S.17
Dang, G.18
Dengrove, D.19
Diola, D.20
Dorin, G.21
Ellens, K.W.22
Fickes, S.23
Galazzo, J.24
Gaucher, S.P.25
Geistlinger, T.26
Henry, R.27
Hepp, M.28
Horning, T.29
Iqbal, T.30
Jiang, H.31
Kizer, L.32
Lieu, B.33
Melis, D.34
Moss, N.35
Regentin, R.36
Secrest, S.37
Tsuruta, H.38
Vazquez, R.39
Westblade, L.F.40
Xu, L.41
Yu, M.42
Zhang, Y.43
Zhao, L.44
Lievense, J.45
Covello, P.S.46
Keasling, J.D.47
Reiling, K.K.48
Renninger, N.S.49
Newman, J.D.50
more..
-
50
-
-
84865967872
-
Kinetic modelling of central carbon metabolism in Escherichia coli
-
PID: 22823407
-
Peskov K, Mogilevskaya E, Demin O (2012) Kinetic modelling of central carbon metabolism in Escherichia coli. FEBS J 279:3374–3385
-
(2012)
FEBS J
, vol.279
, pp. 3374-3385
-
-
Peskov, K.1
Mogilevskaya, E.2
Demin, O.3
-
51
-
-
84921369209
-
Post-translational modifications as key regulators of bacterial metabolic fluxes
-
PID: 25597444
-
Pisithkul T, Patel NM, Amador-Noguez D (2015) Post-translational modifications as key regulators of bacterial metabolic fluxes. Curr Opin Microbiol 24:29–37
-
(2015)
Curr Opin Microbiol
, vol.24
, pp. 29-37
-
-
Pisithkul, T.1
Patel, N.M.2
Amador-Noguez, D.3
-
52
-
-
53549123008
-
Nature, nurture, or chance: stochastic gene expression and its consequences
-
PID: 18957198
-
Raj A, 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
-
53
-
-
84920816915
-
Tuning riboswitch-mediated gene regulation by rational control of aptamer ligand binding properties
-
PID: 25470002
-
Rode AB, Endoh T, Sugimoto N (2015) Tuning riboswitch-mediated gene regulation by rational control of aptamer ligand binding properties. Angew Chem Int Ed Engl 54:905–909
-
(2015)
Angew Chem Int Ed Engl
, vol.54
, pp. 905-909
-
-
Rode, A.B.1
Endoh, T.2
Sugimoto, N.3
-
54
-
-
6044249046
-
Metabolic design based on a coupled gene expression-metabolic network model of tryptophan production in Escherichia coli
-
PID: 15491865
-
Schmid JW, Mauch K, Reuss M, Gilles ED, Kremling A (2004) Metabolic design based on a coupled gene expression-metabolic network model of tryptophan production in Escherichia coli. Metab Eng 6:364–377
-
(2004)
Metab Eng
, vol.6
, pp. 364-377
-
-
Schmid, J.W.1
Mauch, K.2
Reuss, M.3
Gilles, E.D.4
Kremling, A.5
-
55
-
-
85030318783
-
Engineering microbial metabolite dynamics and heterogeneity
-
Schmitz AC, Hartline CJ, Zhang F (2017) Engineering microbial metabolite dynamics and heterogeneity. Biotechnol J 12(10). https://doi.org/10.1002/biot.201700422
-
(2017)
Biotechnol J
, vol.12
, Issue.10
-
-
Schmitz, A.C.1
Hartline, C.J.2
Zhang, F.3
-
56
-
-
0036578795
-
Network motifs in the transcriptional regulation network of Escherichia coli
-
PID: 11967538
-
Shen-Orr SS, Milo R, Mangan S, Alon U (2002) Network motifs in the transcriptional regulation network of Escherichia coli. Nat Genet 31:64–68
-
(2002)
Nat Genet
, vol.31
, pp. 64-68
-
-
Shen-Orr, S.S.1
Milo, R.2
Mangan, S.3
Alon, U.4
-
57
-
-
85027580695
-
Decoupling resource-coupled gene expression in living cells
-
PID: 28459541
-
Shopera T, He L, Oyetunde T, Tang YJ, Moon TS (2017) Decoupling resource-coupled gene expression in living cells. ACS Synth Biol 6:1596–1604
-
(2017)
ACS Synth Biol
, vol.6
, pp. 1596-1604
-
-
Shopera, T.1
He, L.2
Oyetunde, T.3
Tang, Y.J.4
Moon, T.S.5
-
58
-
-
84922432383
-
Genome-scale modeling for metabolic engineering
-
PID: 25578304
-
Simeonidis E, Price ND (2015) Genome-scale modeling for metabolic engineering. J Ind Microbiol Biotechnol 42:327–338
-
(2015)
J Ind Microbiol Biotechnol
, vol.42
, pp. 327-338
-
-
Simeonidis, E.1
Price, N.D.2
-
59
-
-
84862081641
-
Foundations for the design and implementation of synthetic genetic circuits
-
PID: 22596318
-
Slusarczyk AL, Lin A, Weiss R (2012) Foundations for the design and implementation of synthetic genetic circuits. Nat Rev Genet 13:406–420
-
(2012)
Nat Rev Genet
, vol.13
, pp. 406-420
-
-
Slusarczyk, A.L.1
Lin, A.2
Weiss, R.3
-
60
-
-
84901049716
-
Bet-hedging during bacterial diauxic shift
-
PID: 24799698
-
Solopova A, van Gestel J, Weissing FJ, Bachmann H, Teusink B, Kok J, Kuipers OP (2014) Bet-hedging during bacterial diauxic shift. Proc Natl Acad Sci USA 111:7427–7432
-
(2014)
Proc Natl Acad Sci USA
, vol.111
, pp. 7427-7432
-
-
Solopova, A.1
van Gestel, J.2
Weissing, F.J.3
Bachmann, H.4
Teusink, B.5
Kok, J.6
Kuipers, O.P.7
-
61
-
-
84928753819
-
Self-induced metabolic state switching by a tunable cell density sensor for microbial isopropanol production
-
PID: 25908185
-
Soma Y, Hanai T (2015) Self-induced metabolic state switching by a tunable cell density sensor for microbial isopropanol production. Metab Eng 30:7–15
-
(2015)
Metab Eng
, vol.30
, pp. 7-15
-
-
Soma, Y.1
Hanai, T.2
-
62
-
-
84924258069
-
Designing RNA-based genetic control systems for efficient production from engineered metabolic pathways
-
PID: 25314371
-
Stevens JT, Carothers JM (2015) Designing RNA-based genetic control systems for efficient production from engineered metabolic pathways. ACS Synth Biol 4:107–115
-
(2015)
ACS Synth Biol
, vol.4
, pp. 107-115
-
-
Stevens, J.T.1
Carothers, J.M.2
-
63
-
-
70350324632
-
Emergent bistability by a growth-modulating positive feedback circuit
-
PID: 19801994
-
Tan C, Marguet P, You L (2009) Emergent bistability by a growth-modulating positive feedback circuit. Nat Chem Biol 5:842–848
-
(2009)
Nat Chem Biol
, vol.5
, pp. 842-848
-
-
Tan, C.1
Marguet, P.2
You, L.3
-
64
-
-
84956609810
-
Engineering an allosteric transcription factor to respond to new ligands
-
PID: 26689263
-
Taylor ND, Garruss AS, Moretti R, Chan S, Arbing MA, Cascio D, Rogers JK, Isaacs FJ, Kosuri S, Baker D, Fields S, Church GM, Raman S (2016) Engineering an allosteric transcription factor to respond to new ligands. Nat Methods 13:177–183
-
(2016)
Nat Methods
, vol.13
, pp. 177-183
-
-
Taylor, N.D.1
Garruss, A.S.2
Moretti, R.3
Chan, S.4
Arbing, M.A.5
Cascio, D.6
Rogers, J.K.7
Isaacs, F.J.8
Kosuri, S.9
Baker, D.10
Fields, S.11
Church, G.M.12
Raman, S.13
-
65
-
-
84897627707
-
Lost in transition: start-up of glycolysis yields subpopulations of nongrowing cells
-
PID: 24436182
-
van Heerden JH, Wortel MT, Bruggeman FJ, Heijnen JJ, Bollen YJM, Planqué R, Hulshof J, O’Toole TG, Wahl SA, Teusink B (2014) Lost in transition: start-up of glycolysis yields subpopulations of nongrowing cells. Science 343:1245114
-
(2014)
Science
, vol.343
, pp. 1245114
-
-
van Heerden, J.H.1
Wortel, M.T.2
Bruggeman, F.J.3
Heijnen, J.J.4
Bollen, Y.J.M.5
Planqué, R.6
Hulshof, J.7
O’Toole, T.G.8
Wahl, S.A.9
Teusink, B.10
-
66
-
-
84911941359
-
Dynamic optimization of metabolic networks coupled with gene expression
-
PID: 25451533
-
Waldherr S, Oyarzún DA, Bockmayr A (2015) Dynamic optimization of metabolic networks coupled with gene expression. J Theor Biol 365:469–485
-
(2015)
J Theor Biol
, vol.365
, pp. 469-485
-
-
Waldherr, S.1
Oyarzún, D.A.2
Bockmayr, A.3
-
67
-
-
85006309698
-
Design and construction of generalizable RNA-protein hybrid controllers by level-matched genetic signal amplification
-
Wang Y-H, McKeague M, Hsu TM, Smolke CD (2016) Design and construction of generalizable RNA-protein hybrid controllers by level-matched genetic signal amplification. Cell Syst 3(549–562):e547
-
(2016)
Cell Syst
, vol.3
, Issue.549-562
-
-
Wang, Y.-H.1
McKeague, M.2
Hsu, T.M.3
Smolke, C.D.4
-
68
-
-
84924370996
-
Mechanistic links between cellular trade-offs, gene expression, and growth
-
PID: 25695966
-
Weiße AY, Oyarzún DA, Danos V, Swain PS (2015) Mechanistic links between cellular trade-offs, gene expression, and growth. Proc Natl Acad Sci USA 112:E1038–E1047
-
(2015)
Proc Natl Acad Sci USA
, vol.112
, pp. E1038-E1047
-
-
Weiße, A.Y.1
Oyarzún, D.A.2
Danos, V.3
Swain, P.S.4
-
69
-
-
84961393253
-
Exploiting nongenetic cell-to-cell variation for enhanced biosynthesis
-
PID: 26999780
-
Xiao Y, Bowen CH, Liu D, Zhang F (2016) Exploiting nongenetic cell-to-cell variation for enhanced biosynthesis. Nat Chem Biol 12:339–344
-
(2016)
Nat Chem Biol
, vol.12
, pp. 339-344
-
-
Xiao, Y.1
Bowen, C.H.2
Liu, D.3
Zhang, F.4
-
70
-
-
84917707014
-
Sequential control of biosynthetic pathways for balanced utilization of metabolic intermediates in Saccharomyces cerevisiae
-
PID: 25475893
-
Xie W, Ye L, Lv X, Xu H, Yu H (2015) Sequential control of biosynthetic pathways for balanced utilization of metabolic intermediates in Saccharomyces cerevisiae. Metab Eng 28:8–18
-
(2015)
Metab Eng
, vol.28
, pp. 8-18
-
-
Xie, W.1
Ye, L.2
Lv, X.3
Xu, H.4
Yu, H.5
-
71
-
-
84905668376
-
Improving fatty acids production by engineering dynamic pathway regulation and metabolic control
-
PID: 25049420
-
Xu P, Li L, Zhang F, Stephanopoulos G, Koffas M (2014) Improving fatty acids production by engineering dynamic pathway regulation and metabolic control. Proc Natl Acad Sci USA 111:11299–11304
-
(2014)
Proc Natl Acad Sci USA
, vol.111
, pp. 11299-11304
-
-
Xu, P.1
Li, L.2
Zhang, F.3
Stephanopoulos, G.4
Koffas, M.5
-
72
-
-
84883802093
-
Production of omega-3 eicosapentaenoic acid by metabolic engineering of Yarrowia lipolytica
-
PID: 23873085
-
Xue Z, Sharpe PL, Hong S-P, Yadav NS, Xie D, Short DR, Damude HG, Rupert RA, Seip JE, Wang J, Pollak DW, Bostick MW, Bosak MD, Macool DJ, Hollerbach DH, Zhang H, Arcilla DM, Bledsoe SA, Croker K, McCord EF, Tyreus BD, Jackson EN, Zhu Q (2013) Production of omega-3 eicosapentaenoic acid by metabolic engineering of Yarrowia lipolytica. Nat Biotechnol 31:734–740
-
(2013)
Nat Biotechnol
, vol.31
, pp. 734-740
-
-
Xue, Z.1
Sharpe, P.L.2
Hong, S.-P.3
Yadav, N.S.4
Xie, D.5
Short, D.R.6
Damude, H.G.7
Rupert, R.A.8
Seip, J.E.9
Wang, J.10
Pollak, D.W.11
Bostick, M.W.12
Bosak, M.D.13
Macool, D.J.14
Hollerbach, D.H.15
Zhang, H.16
Arcilla, D.M.17
Bledsoe, S.A.18
Croker, K.19
McCord, E.F.20
Tyreus, B.D.21
Jackson, E.N.22
Zhu, Q.23
more..
-
73
-
-
2442526837
-
Just-in-time transcription program in metabolic pathways
-
PID: 15107854
-
Zaslaver A, Mayo AE, Rosenberg R, Bashkin P, Sberro H, Tsalyuk M, Surette MG, Alon U (2004) Just-in-time transcription program in metabolic pathways. Nat Genet 36:486–491
-
(2004)
Nat Genet
, vol.36
, pp. 486-491
-
-
Zaslaver, A.1
Mayo, A.E.2
Rosenberg, R.3
Bashkin, P.4
Sberro, H.5
Tsalyuk, M.6
Surette, M.G.7
Alon, U.8
-
74
-
-
84859633048
-
Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids
-
PID: 22446695
-
Zhang F, Carothers JM, Keasling JD (2012) Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids. Nat Biotechnol 30:354–359
-
(2012)
Nat Biotechnol
, vol.30
, pp. 354-359
-
-
Zhang, F.1
Carothers, J.M.2
Keasling, J.D.3
-
75
-
-
79959913313
-
Biosensors and their applications in microbial metabolic engineering
-
PID: 21664818
-
Zhang F, Keasling J (2011) Biosensors and their applications in microbial metabolic engineering. Trends Microbiol 19:323–329
-
(2011)
Trends Microbiol
, vol.19
, pp. 323-329
-
-
Zhang, F.1
Keasling, J.2
-
76
-
-
84931265624
-
Development of biosensors and their application in metabolic engineering
-
PID: 26056948
-
Zhang J, Jensen MK, Keasling JD (2015) Development of biosensors and their application in metabolic engineering. Curr Opin Chem Biol 28:1–8
-
(2015)
Curr Opin Chem Biol
, vol.28
, pp. 1-8
-
-
Zhang, J.1
Jensen, M.K.2
Keasling, J.D.3
-
77
-
-
84934907570
-
Exploring lysine riboswitch for metabolic flux control and improvement of l-lysine synthesis in Corynebacterium glutamicum
-
PID: 25575181
-
Zhou L-B, Zeng A-P (2015) Exploring lysine riboswitch for metabolic flux control and improvement of l-lysine synthesis in Corynebacterium glutamicum. ACS Synth Biol 4:729–734
-
(2015)
ACS Synth Biol
, vol.4
, pp. 729-734
-
-
Zhou, L.-B.1
Zeng, A.-P.2
|