-
1
-
-
77957329119
-
Isoprenoid pathway optimization for taxol precursor overproduction in Escherichia coli
-
CrossRef PubMed
-
Ajikumar, P.K., Xiao, W.H., Tyo, K.E.J., Wang, Y., Simeon, F., Leonard, E., Mucha, O., Heng Phon, T., Pfeifer, B. and Stephanopoulos, G. (2010) Isoprenoid pathway optimization for taxol precursor overproduction in Escherichia coli. Science 330, 70-74 CrossRef PubMed.
-
(2010)
Science
, vol.330
, pp. 70-74
-
-
Ajikumar, P.K.1
Xiao, W.H.2
Tyo, K.E.J.3
Wang, Y.4
Simeon, F.5
Leonard, E.6
Mucha, O.7
Heng Phon, T.8
Pfeifer, B.9
Stephanopoulos, G.10
-
2
-
-
68449103617
-
Stabilized gene duplication enables long-term selection-free heterologous pathway expression
-
CrossRef PubMed
-
Tyo, K.E.J, Ajikumar, P.K. and Stephanopoulos, G. (2009) Stabilized gene duplication enables long-term selection-free heterologous pathway expression. Nat. Biotechnol. 27, 760-765 CrossRef PubMed.
-
(2009)
Nat. Biotechnol
, vol.27
, pp. 760-765
-
-
Tyo, K.E.J.1
Ajikumar, P.K.2
Stephanopoulos, G.3
-
3
-
-
84871770439
-
Promoter engineering: Recent advances in controlling transcription at the most fundamental level
-
CrossRef PubMed
-
Blazeck, J. and Alper, H.S. (2013) Promoter engineering: recent advances in controlling transcription at the most fundamental level. Biotechnol. J. 8, 46-58 CrossRef PubMed.
-
(2013)
Biotechnol. J.
, vol.8
, pp. 46-58
-
-
Blazeck, J.1
Alper, H.S.2
-
4
-
-
84923925548
-
Metabolic engineering of Escherichia coli for the production of riboflavin
-
CrossRef PubMed
-
Lin, Z., Xu, Z., Li, Y., Wang, Z., Chen, T. and Zhao, X. (2014) Metabolic engineering of Escherichia coli for the production of riboflavin. Microb. Cell Fact. 13, 1-12 CrossRef PubMed.
-
(2014)
Microb. Cell Fact
, vol.13
, pp. 1-12
-
-
Lin, Z.1
Xu, Z.2
Li, Y.3
Wang, Z.4
Chen, T.5
Zhao, X.6
-
5
-
-
84868319444
-
Design and testing of a synthetic biology framework for genetic engineering of Corynebacterium glutamicum
-
CrossRef PubMed
-
Ravasi, P., Peiru, S., Gramajo, H. and Menzella, H.G. (2012) Design and testing of a synthetic biology framework for genetic engineering of Corynebacterium glutamicum. Microb. Cell Fact. 11, 147-158 CrossRef PubMed.
-
(2012)
Microb. Cell Fact
, vol.11
, pp. 147-158
-
-
Ravasi, P.1
Peiru, S.2
Gramajo, H.3
Menzella, H.G.4
-
6
-
-
84929593888
-
Synthetic Biology toolbox for controlling gene expression in the Cyanobacterium Synechococcus sp. Strain PCC 7002
-
CrossRef PubMed
-
Markley, A.L., Begemann, M.B., Clarke, R.E., Gordon, G.C. and Pfleger, B.F. (2015) Synthetic Biology toolbox for controlling gene expression in the Cyanobacterium Synechococcus sp. strain PCC 7002. ACS Synth. Biol. 4, 595-603 CrossRef PubMed.
-
(2015)
ACS Synth. Biol
, vol.4
, pp. 595-603
-
-
Markley, A.L.1
Begemann, M.B.2
Clarke, R.E.3
Gordon, G.C.4
Pfleger, B.F.5
-
7
-
-
84937436324
-
Codon bias as a means to fine-tune gene expression
-
CrossRef PubMed
-
Quax, T.E.F., Claassens, N.J., Soll, D. and van der Oost, J. (2015) Codon bias as a means to fine-tune gene expression. Mol. Cell 59, 149-161 CrossRef PubMed.
-
(2015)
Mol. Cell
, vol.59
, pp. 149-161
-
-
Quax, T.E.F.1
Claassens, N.J.2
Soll, D.3
Van Der Oost, J.4
-
8
-
-
79957798888
-
Codon usage: Nature's roadmap to expression and folding of proteins
-
CrossRef PubMed
-
Angov, E. (2011) Codon usage: nature's roadmap to expression and folding of proteins. Biotechnol. J. 6, 650-659 CrossRef PubMed.
-
(2011)
Biotechnol. J.
, vol.6
, pp. 650-659
-
-
Angov, E.1
-
9
-
-
84881004490
-
Use of expression-enhancing terminators in Saccharomyces cerevisiae to increase mRNA half-life and improve gene expression control for metabolic engineering applications
-
CrossRef PubMed
-
Curran, K.A., Karim, A.S., Gupta, A. and Alper, H.S. (2013) Use of expression-enhancing terminators in Saccharomyces cerevisiae to increase mRNA half-life and improve gene expression control for metabolic engineering applications. Metab. Eng. 19, 88-97 CrossRef PubMed.
-
(2013)
Metab. Eng
, vol.19
, pp. 88-97
-
-
Curran, K.A.1
Karim, A.S.2
Gupta, A.3
Alper, H.S.4
-
10
-
-
84911920717
-
Metabolic pathway balancing and its role in the production of biofuels and chemicals
-
CrossRef
-
Jones, J.A., Toparlak, O.D. and Koffas, M.A. (2015) Metabolic pathway balancing and its role in the production of biofuels and chemicals. Curr. Opin. Biotech. 33, 52-59 CrossRef.
-
(2015)
Curr. Opin. Biotech
, vol.33
, pp. 52-59
-
-
Jones, J.A.1
Toparlak, O.D.2
Koffas, M.A.3
-
11
-
-
23044501802
-
Evolving strategies for enzyme engineering
-
CrossRef PubMed
-
Bloom, J.D., Meyer, M.M., Meinhold, P., Otey, C.R., MacMillan, D. and Arnold, F.H. (2005) Evolving strategies for enzyme engineering. Curr. Opin. Struct. Biol. 15, 447-452 CrossRef PubMed.
-
(2005)
Curr. Opin. Struct. Biol
, vol.15
, pp. 447-452
-
-
Bloom, J.D.1
Meyer, M.M.2
Meinhold, P.3
Otey, C.R.4
MacMillan, D.5
Arnold, F.H.6
-
12
-
-
68449088806
-
Synthetic protein scaffolds provide modular control over metabolic flux
-
CrossRef PubMed
-
Dueber, J.E., Wu, G.C., Malmirchegini, G.R., Moon, T.S., Petzold, C.J., Ullal, A.V., Prather, K.L.J. and Keasling, J.D. (2009) Synthetic protein scaffolds provide modular control over metabolic flux. Nat. Biotechnol. 27, 753-759 CrossRef PubMed.
-
(2009)
Nat. Biotechnol
, vol.27
, pp. 753-759
-
-
Dueber, J.E.1
Wu, G.C.2
Malmirchegini, G.R.3
Moon, T.S.4
Petzold, C.J.5
Ullal, A.V.6
Prather, K.L.J.7
Keasling, J.D.8
-
13
-
-
84859768457
-
Parts plus pipes: Synthetic biology approaches to metabolic engineering
-
CrossRef PubMed
-
Boyle, P.M. and Silver, P.A. (2012) Parts plus pipes: synthetic biology approaches to metabolic engineering. Metab. Eng. 14, 223-232 CrossRef PubMed.
-
(2012)
Metab. Eng.
, vol.14
, pp. 223-232
-
-
Boyle, P.M.1
Silver, P.A.2
-
14
-
-
77950906711
-
Synthesis of empty bacterial microcompartments, directed organelle protein incorporation, and evidence of filament-associated organelle movement
-
CrossRef PubMed
-
Parsons, J.B., Frank, S., Bhella, D., Liang, M., Prentice, M.B., Mulvihill, D.P. and Warren, M.J. (2010) Synthesis of empty bacterial microcompartments, directed organelle protein incorporation, and evidence of filament-associated organelle movement. Mol. Cell 38, 305-315 CrossRef PubMed.
-
(2010)
Mol. Cell
, vol.38
, pp. 305-315
-
-
Parsons, J.B.1
Frank, S.2
Bhella, D.3
Liang, M.4
Prentice, M.B.5
Mulvihill, D.P.6
Warren, M.J.7
-
15
-
-
84923594078
-
Unexpected versatility in bacterial riboswitches
-
CrossRef PubMed
-
Mellin, J.R. and Cossart, P. (2015) Unexpected versatility in bacterial riboswitches. Trends Genet. 31, 150-156 CrossRef PubMed.
-
(2015)
Trends Genet
, vol.31
, pp. 150-156
-
-
Mellin, J.R.1
Cossart, P.2
-
16
-
-
84909963314
-
Toehold switches: De-novo-designed regulators of gene expression
-
CrossRef PubMed
-
Green, A.A., Silver, P.A., Collins, J.J. and Yin, P. (2014) Toehold switches: de-novo-designed regulators of gene expression. Cell 159, 925-939 CrossRef PubMed.
-
(2014)
Cell
, vol.159
, pp. 925-939
-
-
Green, A.A.1
Silver, P.A.2
Collins, J.J.3
Yin, P.4
-
17
-
-
0034688173
-
A synthetic oscillatory network of transcriptional regulators
-
CrossRef PubMed
-
Elowitz, M.B. and Leibler, S. (2000) A synthetic oscillatory network of transcriptional regulators. Nature 403, 335-338 CrossRef PubMed.
-
(2000)
Nature
, vol.403
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
18
-
-
0034688174
-
Construction of a genetic toggle switch in Escherichia coli
-
CrossRef PubMed
-
Gardner, T.S., Cantor, C.R. and Collins, J.J. (2000) Construction of a genetic toggle switch in Escherichia coli. Nature 403, 339-342 CrossRef PubMed.
-
(2000)
Nature
, vol.403
, pp. 339-342
-
-
Gardner, T.S.1
Cantor, C.R.2
Collins, J.J.3
-
19
-
-
32844455250
-
A bottom-up approach to gene regulation
-
CrossRef PubMed
-
Guido, N.J., Wang, X., Adalsteinsson, D., McMillen, D., Hasty, J., Cantor, C.R., Elston, T.C. and Collins, J.J. (2006) A bottom-up approach to gene regulation. Nature 439, 856-860 CrossRef PubMed.
-
(2006)
Nature
, vol.439
, pp. 856-860
-
-
Guido, N.J.1
Wang, X.2
Adalsteinsson, D.3
McMillen, D.4
Hasty, J.5
Cantor, C.R.6
Elston, T.C.7
Collins, J.J.8
-
20
-
-
71849110893
-
Next-generation synthetic gene networks
-
CrossRef PubMed
-
Lu, T.K., Khalil, A.S. and Collins, J.J. (2009) Next-generation synthetic gene networks. Nat. Biotechnol. 27, 1139-1150 CrossRef PubMed.
-
(2009)
Nat. Biotechnol
, vol.27
, pp. 1139-1150
-
-
Lu, T.K.1
Khalil, A.S.2
Collins, J.J.3
-
21
-
-
66149172363
-
Diversity-based, model-guided construction of synthetic gene networks with predicted functions
-
CrossRef PubMed
-
Ellis, T., Wang, X. and Collins, J.J. (2009) Diversity-based, model-guided construction of synthetic gene networks with predicted functions. Nat. Biotechnol. 27, 465-471 CrossRef PubMed.
-
(2009)
Nat. Biotechnol
, vol.27
, pp. 465-471
-
-
Ellis, T.1
Wang, X.2
Collins, J.J.3
-
22
-
-
0030759410
-
Gene expression from plasmids containing the araBAD promoter at subsaturating inducer concentrations represents mixed populations
-
CrossRef PubMed
-
Siegele, D.A. and Hu, J.C. (1997) Gene expression from plasmids containing the araBAD promoter at subsaturating inducer concentrations represents mixed populations. Proc. Natl. Acad. Sci. U.S.A. 94, 8168-8172 CrossRef PubMed.
-
(1997)
Proc. Natl. Acad. Sci. U.S.A
, vol.94
, pp. 8168-8172
-
-
Siegele, D.A.1
Hu, J.C.2
-
23
-
-
31444433490
-
Synthetic promoter libraries - tuning of gene expression
-
CrossRef PubMed
-
Hammer, K., Mijakovic, I. and Jensen, P.R. (2006) Synthetic promoter libraries - tuning of gene expression. Trends Biotechnol. 24, 53-55 CrossRef PubMed.
-
(2006)
Trends Biotechnol
, vol.24
, pp. 53-55
-
-
Hammer, K.1
Mijakovic, I.2
Jensen, P.R.3
-
24
-
-
0032485843
-
Artificial promoters for metabolic optimization
-
CrossRef PubMed
-
Jensen, P.R. and Hammer, K. (1998) Artificial promoters for metabolic optimization. Biotechnol. Bioeng. 58, 191-195 CrossRef PubMed.
-
(1998)
Biotechnol. Bioeng.
, vol.58
, pp. 191-195
-
-
Jensen, P.R.1
Hammer, K.2
-
25
-
-
0035216867
-
Homogeneous expression of the PBAD promoter in Escherichia coli by constitutive expression of the low-affinity high-capacity AraE transporter
-
CrossRef
-
Khlebnikov, A., Datsenko, K.A., Skaug, T., Wanner, B.L. and Keasling, J.D. (2001) Homogeneous expression of the PBAD promoter in Escherichia coli by constitutive expression of the low-affinity high-capacity AraE transporter. Microbiol. 147, 3241-3247 CrossRef.
-
(2001)
Microbiol
, vol.147
, pp. 3241-3247
-
-
Khlebnikov, A.1
Datsenko, K.A.2
Skaug, T.3
Wanner, B.L.4
Keasling, J.D.5
-
26
-
-
81255210794
-
Transcriptional regulation in Saccharomyces cerevisiae: Transcription factor regulation and function, mechanisms of initiation, and roles of activators and coactivators
-
CrossRef PubMed
-
Hahn, S. and Young, E.T. (2011) Transcriptional regulation in Saccharomyces cerevisiae: Transcription factor regulation and function, mechanisms of initiation, and roles of activators and coactivators. Genetics 189, 705-736 CrossRef PubMed.
-
(2011)
Genetics
, vol.189
, pp. 705-736
-
-
Hahn, S.1
Young, E.T.2
-
27
-
-
66149143984
-
Measuring the activity of BioBrick promoters using an in vivo reference standard
-
CrossRef PubMed
-
Kelly, J.R., Rubin, A.J., Davis, J.H., Ajo-Franklin, C.M., Cumbers, J., Czar, M.J., de Mora, K., Glieberman, A.L., Monie, D.D. and Endy, D. (2009) Measuring the activity of BioBrick promoters using an in vivo reference standard. J. Biol. Eng. 3, 4 CrossRef PubMed.
-
(2009)
J. Biol. Eng
, vol.3
, pp. 4
-
-
Kelly, J.R.1
Rubin, A.J.2
Davis, J.H.3
Ajo-Franklin, C.M.4
Cumbers, J.5
Czar, M.J.6
De Mora, K.7
Glieberman, A.L.8
Monie, D.D.9
Endy, D.10
-
28
-
-
84954289869
-
Characterization of intrinsic properties of promoters
-
CrossRef PubMed
-
Rudge, T.J., Brown, J.R., Federici, F., Dalchau, N., Phillips, A., Ajioka, J.W. and Haseloff, J. (2016) Characterization of intrinsic properties of promoters. ACS Synth. Biol. 5, 89-98 CrossRef PubMed.
-
(2016)
ACS Synth. Biol.
, vol.5
, pp. 89-98
-
-
Rudge, T.J.1
Brown, J.R.2
Federici, F.3
Dalchau, N.4
Phillips, A.5
Ajioka, J.W.6
Haseloff, J.7
-
29
-
-
34547471980
-
Construction and model-based analysis of a promoter library for E. Coli: An indispensable tool for metabolic engineering
-
CrossRef PubMed
-
De Mey, M., Maertens, J., Lequeux, G.J., Soetaert, W.K. and Vandamme, E.J. (2007) Construction and model-based analysis of a promoter library for E. coli: an indispensable tool for metabolic engineering. BMC Biotechnol. 7, 34 CrossRef PubMed.
-
(2007)
BMC Biotechnol
, vol.7
, pp. 34
-
-
De Mey, M.1
Maertens, J.2
Lequeux, G.J.3
Soetaert, W.K.4
Vandamme, E.J.5
-
30
-
-
0037188523
-
Long-term and homogeneous regulation of the Escherichia coli araBAD promoter by use of a lactose transporter of relaxed specificity
-
CrossRef PubMed
-
Morgan-Kiss, R.M., Wadler, C. and Cronan Jr, J.E. (2002) Long-term and homogeneous regulation of the Escherichia coli araBAD promoter by use of a lactose transporter of relaxed specificity. Proc. Natl. Acad. Sci. U.S.A. 99, 7373-7377 CrossRef PubMed.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A
, vol.99
, pp. 7373-7377
-
-
Morgan-Kiss, R.M.1
Wadler, C.2
Cronan, J.E.3
-
31
-
-
0032885106
-
Gene-expression tools for the metabolic engineering of bacteria
-
CrossRef PubMed
-
Keasling, J.D. (1999) Gene-expression tools for the metabolic engineering of bacteria. Trends Biotechnol. 17, 452-460 CrossRef PubMed.
-
(1999)
Trends Biotechnol.
, vol.17
, pp. 452-460
-
-
Keasling, J.D.1
-
32
-
-
0025884398
-
High level heterologous expression in E. Coli using mutant forms of the lac promoter
-
CrossRef PubMed
-
Makoff, A.J. and Oxer, M.D. (1991) High level heterologous expression in E. coli using mutant forms of the lac promoter. Nucleic Acids Res. 19, 2417-2421 CrossRef PubMed.
-
(1991)
Nucleic Acids Res
, vol.19
, pp. 2417-2421
-
-
Makoff, A.J.1
Oxer, M.D.2
-
33
-
-
0020649604
-
The tac promoter: A functional hybrid derived from the trp and lac promoters
-
CrossRef PubMed
-
de Boer, H., Comstock, L.J. and Vasser, M. (1983) The tac promoter: a functional hybrid derived from the trp and lac promoters. Proc. Natl. Acad. Sci. U.S.A. 80, 21-25 CrossRef PubMed.
-
(1983)
Proc. Natl. Acad. Sci. U.S.A
, vol.80
, pp. 21-25
-
-
De Boer, H.1
Comstock, L.J.2
Vasser, M.3
-
34
-
-
33747666218
-
Overview of bacterial expression systems for heterologous protein production: From molecular and biochemical fundamentals to commercial systems
-
CrossRef PubMed
-
Terpe, K. (2006) Overview of bacterial expression systems for heterologous protein production: from molecular and biochemical fundamentals to commercial systems. Appl. Microbiol. Biotechnol. 72, 211-222 CrossRef PubMed.
-
(2006)
Appl. Microbiol. Biotechnol
, vol.72
, pp. 211-222
-
-
Terpe, K.1
-
35
-
-
0027471964
-
The use of lac-type promoters in control analysis
-
CrossRef PubMed
-
Jensen, P.R., Westerhoff, H.V. and Michelsen, O. (1993) The use of lac-type promoters in control analysis. Eur. J. Biochem. 211, 181-191 CrossRef PubMed.
-
(1993)
Eur. J. Biochem.
, vol.211
, pp. 181-191
-
-
Jensen, P.R.1
Westerhoff, H.V.2
Michelsen, O.3
-
36
-
-
0033987659
-
Generation of an AraC-araBAD promoter-regulated T7 expression system
-
CrossRef PubMed
-
Wycuff, D.R. and Matthews, K.S. (2000) Generation of an AraC-araBAD promoter-regulated T7 expression system. Anal. Biochem. 277, 67-73 CrossRef PubMed.
-
(2000)
Anal. Biochem
, vol.277
, pp. 67-73
-
-
Wycuff, D.R.1
Matthews, K.S.2
-
37
-
-
0029018327
-
Tight regulation, modulation and high-level expression by vectors containing the Arabinose PBAD promoter
-
PubMed
-
Guzman, L.M., Belin, D., Carson, M.J. and Beckwith, J. (1995) Tight regulation, modulation and high-level expression by vectors containing the Arabinose PBAD promoter. J. Bacteriol. 177, 4121-4130 PubMed.
-
(1995)
J. Bacteriol
, vol.177
, pp. 4121-4130
-
-
Guzman, L.M.1
Belin, D.2
Carson, M.J.3
Beckwith, J.4
-
38
-
-
0026006846
-
A new family of sugar-inducible expression vectors for Escherichia coli
-
CrossRef PubMed
-
Cagnon, C., Valverde, V. and Masson, J.M. (1991) A new family of sugar-inducible expression vectors for Escherichia coli. Protein Eng. 4, 843-847 CrossRef PubMed.
-
(1991)
Protein Eng
, vol.4
, pp. 843-847
-
-
Cagnon, C.1
Valverde, V.2
Masson, J.M.3
-
39
-
-
77951237154
-
Production of recombinant proteins in E. Coli by the heat inducible expression system based on the phage lambda pL and/or pR promoters
-
CrossRef PubMed
-
Valdez-Cruz, N.A., Caspeta, L., Perez, N.O., Ramirez, O.T. and Trujillo-Roldan, M.A. (2010) Production of recombinant proteins in E. coli by the heat inducible expression system based on the phage lambda pL and/or pR promoters. Microb. Cell Fact. 9, 18 CrossRef PubMed.
-
(2010)
Microb. Cell Fact
, vol.9
, pp. 18
-
-
Valdez-Cruz, N.A.1
Caspeta, L.2
Perez, N.O.3
Ramirez, O.T.4
Trujillo-Roldan, M.A.5
-
40
-
-
0025265831
-
Modified bacteriophage lambda promoter vectors for overproduction of proteins in Escherichia coli
-
CrossRef PubMed
-
Elvin, C.M., Thompson, P.R., Argall, M.E., Hendry, P., Stamford, N.P.J., Lilley, P.E. and Dixon, N.E. (1990) Modified bacteriophage lambda promoter vectors for overproduction of proteins in Escherichia coli. Gene 87, 123-126 CrossRef PubMed.
-
(1990)
Gene
, vol.87
, pp. 123-126
-
-
Elvin, C.M.1
Thompson, P.R.2
Argall, M.E.3
Hendry, P.4
Stamford, N.P.J.5
Lilley, P.E.6
Dixon, N.E.7
-
41
-
-
0020480612
-
High level synthesis in Escherichia coli of the Bacillus subtillis phage phi 29 proteins p3 and p4 under the control of phage lambda PL promoter
-
CrossRef PubMed
-
Mellado, R.P. and Salas, M. (1982) High level synthesis in Escherichia coli of the Bacillus subtillis phage phi 29 proteins p3 and p4 under the control of phage lambda PL promoter. Nucleic Acids Res. 10, 5773-5784 CrossRef PubMed.
-
(1982)
Nucleic Acids Res
, vol.10
, pp. 5773-5784
-
-
Mellado, R.P.1
Salas, M.2
-
42
-
-
0021263546
-
High-level expression of human interferon gamma in Escherichia coli under control of the pL promoter of bacteriophage lambda
-
CrossRef PubMed
-
Simons, G., Remaut, E., Allet, B., Devos, R. and Fiers, W. (1984) High-level expression of human interferon gamma in Escherichia coli under control of the pL promoter of bacteriophage lambda. Gene 28, 55-64 CrossRef PubMed.
-
(1984)
Gene
, vol.28
, pp. 55-64
-
-
Simons, G.1
Remaut, E.2
Allet, B.3
Devos, R.4
Fiers, W.5
-
43
-
-
0023042283
-
Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes
-
CrossRef PubMed
-
Studier, F.W. and Moffatt, B.A. (1986) Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J. Mol. Biol. 189, 113-130 CrossRef PubMed.
-
(1986)
J. Mol. Biol
, vol.189
, pp. 113-130
-
-
Studier, F.W.1
Moffatt, B.A.2
-
44
-
-
0026003072
-
Control site location and transcriptional regulation in Escherichia coli
-
PubMed
-
Collado-Vides, J., Magasanik, B. and Gralla, J.D. (1991) Control site location and transcriptional regulation in Escherichia coli. Microbiol. Rev. 55, 371-394 PubMed.
-
(1991)
Microbiol. Rev
, vol.55
, pp. 371-394
-
-
Collado-Vides, J.1
Magasanik, B.2
Gralla, J.D.3
-
45
-
-
0031965086
-
The sequence of spacers between the consensus sequences modulates the strength of prokaryotic promoters
-
Jensen, P.R. and Hammer, K. (1998) The sequence of spacers between the consensus sequences modulates the strength of prokaryotic promoters. Appl. Environ. Microb. 64, 82-87.
-
(1998)
Appl. Environ. Microb
, vol.64
, pp. 82-87
-
-
Jensen, P.R.1
Hammer, K.2
-
46
-
-
0036250071
-
Modulation of gene expression made easy
-
CrossRef
-
Solem, C. and Jensen, P.R. (2002) Modulation of gene expression made easy. Appl. Environ. Microb. 68, 2397-2403 CrossRef.
-
(2002)
Appl. Environ. Microb
, vol.68
, pp. 2397-2403
-
-
Solem, C.1
Jensen, P.R.2
-
47
-
-
84907820245
-
Synthetic promoter libraries for Corynebacterium glutamicum
-
CrossRef PubMed
-
Rytter, J.V., Helmark, S., Chen, J., Lezyk, M.J., Solem, C. and Jensen, P.R. (2014) Synthetic promoter libraries for Corynebacterium glutamicum. Appl. Microbiol. Biotechnol. 98, 2617-2623 CrossRef PubMed.
-
(2014)
Appl. Microbiol. Biotechnol
, vol.98
, pp. 2617-2623
-
-
Rytter, J.V.1
Helmark, S.2
Chen, J.3
Lezyk, M.J.4
Solem, C.5
Jensen, P.R.6
-
48
-
-
84903547767
-
Synthetic promoter library for modulation of Actinorhodin production in Streptomyces coelicolor A3(2)
-
CrossRef PubMed
-
Sohoni, S.V., Fazio, A., Workman, C.T., Mijakovic, I. and Lantz, A.E. (2014) Synthetic promoter library for modulation of Actinorhodin production in Streptomyces coelicolor A3(2). PLoS One 9, e99701 CrossRef PubMed.
-
(2014)
PLoS One
, vol.9
, pp. e99701
-
-
Sohoni, S.V.1
Fazio, A.2
Workman, C.T.3
Mijakovic, I.4
Lantz, A.E.5
-
49
-
-
84858609338
-
Rational diversification of a promoter providing fine-tuned expression and orthogonal regulation for synthetic biology
-
CrossRef PubMed
-
Blount, B.A., Weenink, T., Vasylechko, S. and Ellis, T. (2012) Rational diversification of a promoter providing fine-tuned expression and orthogonal regulation for synthetic biology. PLoS One 7, e33279 CrossRef PubMed.
-
(2012)
PLoS One
, vol.7
, pp. e33279
-
-
Blount, B.A.1
Weenink, T.2
Vasylechko, S.3
Ellis, T.4
-
50
-
-
0038719686
-
Reb1p-dependent DNA bending effects nucleosome positioning and constitutive transcription at the yeast profilin promoter
-
CrossRef PubMed
-
Angermayr, M., Oechsner, U. and Bandlow, W. (2003) Reb1p-dependent DNA bending effects nucleosome positioning and constitutive transcription at the yeast profilin promoter. J. Biol. Chem. 278, 17918-17926 CrossRef PubMed.
-
(2003)
J. Biol. Chem
, vol.278
, pp. 17918-17926
-
-
Angermayr, M.1
Oechsner, U.2
Bandlow, W.3
-
51
-
-
84891140567
-
Synthetic promoters functional in Francisella novicida and Escherichia coli
-
CrossRef
-
McWhinnie, R.L. and Nano, F.E. (2013) Synthetic promoters functional in Francisella novicida and Escherichia coli. Appl. Environ. Microb. 80, 226-234 CrossRef.
-
(2013)
Appl. Environ. Microb
, vol.80
, pp. 226-234
-
-
McWhinnie, R.L.1
Nano, F.E.2
-
52
-
-
31444451679
-
Response to Hammer et al.: Tuning genetic control - importance of thorough promoter characterization versus generating promoter diversity
-
CrossRef PubMed
-
Fischer, C.R., Alper, H., Nevoigt, E., Jensen, K.L. and Stephanopoulos, G. (2006) Response to Hammer et al.: Tuning genetic control - importance of thorough promoter characterization versus generating promoter diversity. Trends Biotechnol. 24, 55-56 CrossRef PubMed.
-
(2006)
Trends Biotechnol
, vol.24
, pp. 55-56
-
-
Fischer, C.R.1
Alper, H.2
Nevoigt, E.3
Jensen, K.L.4
Stephanopoulos, G.5
-
53
-
-
24644515752
-
Tuning genetic control through promoter engineering
-
CrossRef PubMed
-
Alper, H., Fischer, C., Nevoigt, E. and Stephanopoulos, G. (2005) Tuning genetic control through promoter engineering. Proc. Natl. Acad. Sci. U.S.A. 102, 12678-12683 CrossRef PubMed.
-
(2005)
Proc. Natl. Acad. Sci. U.S.A
, vol.102
, pp. 12678-12683
-
-
Alper, H.1
Fischer, C.2
Nevoigt, E.3
Stephanopoulos, G.4
-
54
-
-
84884532775
-
Isolation of fully synthetic promoters for high-level gene expression in corynebacterium glutamicum
-
CrossRef PubMed
-
Yim, S.S., An, S.J., Kang, M., Lee, J. and Jeong, K.J. (2013) Isolation of fully synthetic promoters for high-level gene expression in Corynebacterium glutamicum. Biotechnol. Bioeng. 110, 2959-2969 CrossRef PubMed.
-
(2013)
Biotechnol. Bioeng
, vol.110
, pp. 2959-2969
-
-
Yim, S.S.1
An, S.J.2
Kang, M.3
Lee, J.4
Jeong, K.J.5
-
55
-
-
33747376106
-
Engineering of promoter replacement cassettes for fine-tuning of gene expression in Saccharomyces cerevisiae
-
CrossRef PubMed
-
Nevoigt, E., Kohnke, J., Fischer, C.R., Alper, H., Stahl, U. and Stephanopoulos, G. (2006) Engineering of promoter replacement cassettes for fine-tuning of gene expression in Saccharomyces cerevisiae. Appl. Environ. Microbiol. 72, 5266-5273 CrossRef PubMed.
-
(2006)
Appl. Environ. Microbiol
, vol.72
, pp. 5266-5273
-
-
Nevoigt, E.1
Kohnke, J.2
Fischer, C.R.3
Alper, H.4
Stahl, U.5
Stephanopoulos, G.6
-
56
-
-
84866744379
-
Controlling promoter strength and regulation in Saccharomyces cerevisiae using synthetic hybrid promoters
-
CrossRef PubMed
-
Blazeck, J., Garg, R., Reed, B. and Alper, H.S. (2012) Controlling promoter strength and regulation in Saccharomyces cerevisiae using synthetic hybrid promoters. Biotechnol. Bioeng. 109, 2884-2895 CrossRef PubMed.
-
(2012)
Biotechnol. Bioeng
, vol.109
, pp. 2884-2895
-
-
Blazeck, J.1
Garg, R.2
Reed, B.3
Alper, H.S.4
-
57
-
-
33646581979
-
Identifying functionally important mutations from phenotypically diverse sequence data
-
CrossRef
-
Jensen, K., Alper, H., Fischer, C. and Stephanopoulos, G. (2006) Identifying functionally important mutations from phenotypically diverse sequence data. Appl. Environ. Microb. 72, 3696-3701 CrossRef.
-
(2006)
Appl. Environ. Microb
, vol.72
, pp. 3696-3701
-
-
Jensen, K.1
Alper, H.2
Fischer, C.3
Stephanopoulos, G.4
-
58
-
-
33747885942
-
On counting position weight matrix matches in a sequence, with application to discriminative motif finding
-
CrossRef PubMed
-
Sinha, S. (2006) On counting position weight matrix matches in a sequence, with application to discriminative motif finding. Bioinformatics 22, e454-e463 CrossRef PubMed.
-
(2006)
Bioinformatics
, vol.22
, pp. e454-e463
-
-
Sinha, S.1
-
59
-
-
0034072450
-
DNA binding sites: Representation and discovery
-
CrossRef PubMed
-
Stromo, G.D. (2000) DNA binding sites: representation and discovery. Bioinformatics 16, 16-23 CrossRef PubMed.
-
(2000)
Bioinformatics
, vol.16
, pp. 16-23
-
-
Stromo, G.D.1
-
60
-
-
77649254204
-
Predicting strength and function for promoters of the Escherichia coli alternative sigma factor, σE
-
CrossRef PubMed
-
Rhodius, V.A. and Mutalik, V.K. (2010) Predicting strength and function for promoters of the Escherichia coli alternative sigma factor, σE. Proc. Natl. Acad. Sci. U.S.A. 107, 2854-2859 CrossRef PubMed.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A
, vol.107
, pp. 2854-2859
-
-
Rhodius, V.A.1
Mutalik, V.K.2
-
61
-
-
84860155171
-
Predicting the strength of UP-elements and full-length E. Coli σE promoters
-
CrossRef PubMed
-
Rhodius, V.A., Mutalik, V.K. and Gross, C.A. (2012) Predicting the strength of UP-elements and full-length E. coli σE promoters. Nucleic Acids Res. 40, 2907-2924 CrossRef PubMed.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 2907-2924
-
-
Rhodius, V.A.1
Mutalik, V.K.2
Gross, C.A.3
-
62
-
-
0027298171
-
Quantitative sequence-activity models (QSAM)-tools for sequence design
-
CrossRef
-
Jonsson, J., Norberg, T., Carlsson, L., Gustafsson, C. and Wold, S. (1993) Quantitative sequence-activity models (QSAM)-tools for sequence design. Nucleic Acids Res. 12, 733-739 CrossRef.
-
(1993)
Nucleic Acids Res
, vol.12
, pp. 733-739
-
-
Jonsson, J.1
Norberg, T.2
Carlsson, L.3
Gustafsson, C.4
Wold, S.5
-
63
-
-
77952310558
-
Promoter knock-in: A novel rational method for the fine tuning of genes
-
CrossRef PubMed
-
De Mey, M., Maertens, J., Boogmans, S., Soetaert, W.K., Vandamme, E.J., Cunin, R. and Foulquie-Moreno, M.R. (2010) Promoter knock-in: a novel rational method for the fine tuning of genes. BMC Biotechnol. 10, 26 CrossRef PubMed.
-
(2010)
BMC Biotechnol.
, vol.10
, pp. 26
-
-
De Mey, M.1
Maertens, J.2
Boogmans, S.3
Soetaert, W.K.4
Vandamme, E.J.5
Cunin, R.6
Foulquie-Moreno, M.R.7
-
64
-
-
84875670972
-
Quantitative design of regulatory elements based on high-precision strength prediction using artificial neural network
-
CrossRef PubMed
-
Meng, H., Wang, J., Xiong, Z., Xu, F., Zhao, G. and Wang, Y. (2013) Quantitative design of regulatory elements based on high-precision strength prediction using artificial neural network. PLoS One 8, e60288 CrossRef PubMed.
-
(2013)
PLoS One
, vol.8
, pp. e60288
-
-
Meng, H.1
Wang, J.2
Xiong, Z.3
Xu, F.4
Zhao, G.5
Wang, Y.6
-
65
-
-
85007264668
-
Cis-acting regulatory elements: From random screening to quantitative design
-
CrossRef
-
Meng, H. and Wang, Y. (2015) Cis-acting regulatory elements: from random screening to quantitative design. Quant. Biol. 3, 107-114 CrossRef.
-
(2015)
Quant. Biol
, vol.3
, pp. 107-114
-
-
Meng, H.1
Wang, Y.2
-
66
-
-
84907054574
-
Artificial neural networks: An overview and their use in the analysis of the AMPHORA-3 dataset
-
CrossRef PubMed
-
Buscema, P.M., Massini, G. and Maurelli, G. (2014) Artificial neural networks: an overview and their use in the analysis of the AMPHORA-3 dataset. Subst. Use Misuse 49, 1555-1568 CrossRef PubMed.
-
(2014)
Subst. Use Misuse
, vol.49
, pp. 1555-1568
-
-
Buscema, P.M.1
Massini, G.2
Maurelli, G.3
-
67
-
-
79951565301
-
Design, construction and characterization of a set of insulated bacterial promoters
-
CrossRef PubMed
-
Davis, J.H., Rubin, A.J. and Sauer, R.T. (2011) Design, construction and characterization of a set of insulated bacterial promoters. Nucleic Acids Res. 39, 1131-1141 CrossRef PubMed.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 1131-1141
-
-
Davis, J.H.1
Rubin, A.J.2
Sauer, R.T.3
-
68
-
-
0023650609
-
Analysis of E. Coli promoter sequences
-
CrossRef PubMed
-
Harley, C.B. and Reynolds, R.P. (1987) Analysis of E. coli promoter sequences. Nucleic Acids Res. 15, 2343-2361 CrossRef PubMed.
-
(1987)
Nucleic Acids Res
, vol.15
, pp. 2343-2361
-
-
Harley, C.B.1
Reynolds, R.P.2
-
69
-
-
20344396385
-
Structural properties of promoters: Similarities and differences between prokaryotes and eukaryotes
-
CrossRef PubMed
-
Kanhere, A. and Bansal, M. (2005) Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes. Nucleic Acids Res. 33, 3165-3175 CrossRef PubMed.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 3165-3175
-
-
Kanhere, A.1
Bansal, M.2
-
70
-
-
0027982993
-
On the consensus structure within the E. Coli promoters
-
CrossRef PubMed
-
Nair, T.M. and Kulkarni, B.D. (1994) On the consensus structure within the E. coli promoters. Biophys. Chem. 48, 383-393 CrossRef PubMed.
-
(1994)
Biophys. Chem
, vol.48
, pp. 383-393
-
-
Nair, T.M.1
Kulkarni, B.D.2
-
71
-
-
0032544080
-
Identification of an UP element consensus sequence for bacterial promoters
-
CrossRef PubMed
-
Estrem, S.T., Gaal, T., Ross, W. and Gourse, R.L. (1998) Identification of an UP element consensus sequence for bacterial promoters. Proc. Natl. Acad. Sci. U.S.A. 95, 9761-9766 CrossRef PubMed.
-
(1998)
Proc. Natl. Acad. Sci. U.S.A
, vol.95
, pp. 9761-9766
-
-
Estrem, S.T.1
Gaal, T.2
Ross, W.3
Gourse, R.L.4
-
72
-
-
0031691355
-
Escherichia coli promoters with UP elements of different strengths: Modular structure of bacterial promoters
-
PubMed
-
Ross, W., Aiyar, S.E., Salomon, J. and Gourse, R.L. (1998) Escherichia coli promoters with UP elements of different strengths: modular structure of bacterial promoters. J. Bacteriol. 180, 5375-5383 PubMed.
-
(1998)
J. Bacteriol.
, vol.180
, pp. 5375-5383
-
-
Ross, W.1
Aiyar, S.E.2
Salomon, J.3
Gourse, R.L.4
-
73
-
-
0031840672
-
Molecular genetics of the RNA polymerase II general transcriptional machinery
-
PubMed
-
Hampsey, M. (1998) Molecular genetics of the RNA polymerase II general transcriptional machinery. Microbiol. Mol. Biol. Rev. 62, 465-503 PubMed.
-
(1998)
Microbiol. Mol. Biol. Rev
, vol.62
, pp. 465-503
-
-
Hampsey, M.1
-
74
-
-
1542328960
-
Identification and distinct regulation of yeast TATA box-containing genes
-
CrossRef PubMed
-
Basehoar, A.D., Zanton, S.J. and Pugh, B.F. (2004) Identification and distinct regulation of yeast TATA box-containing genes. Cell 116, 699-709 CrossRef PubMed.
-
(2004)
Cell
, vol.116
, pp. 699-709
-
-
Basehoar, A.D.1
Zanton, S.J.2
Pugh, B.F.3
-
75
-
-
0034628901
-
Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae
-
CrossRef PubMed
-
Hughes, J.D., Estep, P.W., Tavazoie, S. and Church, G.M. (2000) Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae. J. Mol. Biol. 296, 1205-1214 CrossRef PubMed.
-
(2000)
J. Mol. Biol
, vol.296
, pp. 1205-1214
-
-
Hughes, J.D.1
Estep, P.W.2
Tavazoie, S.3
Church, G.M.4
-
76
-
-
4544352942
-
Transcriptional regulatory code of a eukaryotic genome
-
CrossRef PubMed
-
Harbison, C.T., Gordon, D.B., Lee, T.I., Rinaldi, N.J., Macisaac, K.D., Danford, T.W., Hannett, N.M., Tagne, J.B., Reynolds, D.B., Yoo, J. et al. (2004) Transcriptional regulatory code of a eukaryotic genome. Nature 431, 99-104 CrossRef PubMed.
-
(2004)
Nature
, vol.431
, pp. 99-104
-
-
Harbison, C.T.1
Gordon, D.B.2
Lee, T.I.3
Rinaldi, N.J.4
Macisaac, K.D.5
Danford, T.W.6
Hannett, N.M.7
Tagne, J.B.8
Reynolds, D.B.9
Yoo, J.10
|