-
1
-
-
33646877664
-
Modular approaches to expanding the functions of living matter
-
Chin, J.W. Modular approaches to expanding the functions of living matter. Nat. Chem. Biol. 2, 304-311 (2006).
-
(2006)
Nat. Chem. Biol.
, vol.2
, pp. 304-311
-
-
Chin, J.W.1
-
2
-
-
34547615203
-
Biology by design: Reduction and synthesis of cellular components and behaviour
-
Marguet, P., Balagadde, F., Tan, C. & You, L. Biology by design: reduction and synthesis of cellular components and behaviour. J. R. Soc. Interface 4, 607-623 (2007).
-
(2007)
J. R. Soc. Interface
, vol.4
, pp. 607-623
-
-
Marguet, P.1
Balagadde, F.2
Tan, C.3
You, L.4
-
3
-
-
33748953866
-
Genetic parts to program bacteria
-
Voigt, C.A. Genetic parts to program bacteria. Curr. Opin. Biotechnol. 17, 548-557 (2006).
-
(2006)
Curr. Opin. Biotechnol.
, vol.17
, pp. 548-557
-
-
Voigt, C.A.1
-
5
-
-
46949091517
-
Refinement and standardization of synthetic biological parts and devices
-
Canton, B., Labno, A. & Endy, D. Refinement and standardization of synthetic biological parts and devices. Nat. Biotechnol. 26, 787-793 (2008).
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 787-793
-
-
Canton, B.1
Labno, A.2
Endy, D.3
-
6
-
-
33745454125
-
Synthetic biology: New engineering rules for an emerging discipline
-
Andrianantoandro, E., Basu, S., Karig, D.K. & Weiss, R. Synthetic biology: new engineering rules for an emerging discipline. Mol. Syst. Biol. 2, 2006-0028 (2006).
-
(2006)
Mol. Syst. Biol.
, vol.2
, pp. 2006-0028
-
-
Andrianantoandro, E.1
Basu, S.2
Karig, D.K.3
Weiss, R.4
-
7
-
-
0023287585
-
Simulations of host-plasmid interactions in Escherichia coli: Copy number, promoter strength, and ribosome binding site strength effects on metabolic activity and plasmid gene expression
-
Peretti, S.W. & Bailey, J.E. Simulations of host-plasmid interactions in Escherichia coli: copy number, promoter strength, and ribosome binding site strength effects on metabolic activity and plasmid gene expression. Biotechnol. Bioeng. 29, 316-328 (1987).
-
(1987)
Biotechnol. Bioeng.
, vol.29
, pp. 316-328
-
-
Peretti, S.W.1
Bailey, J.E.2
-
8
-
-
17144456808
-
Positive feedback in eukaryotic gene networks: Cell differentiation by graded to binary response conversion
-
Becskei, A., Seraphin, B. & Serrano, L. Positive feedback in eukaryotic gene networks: cell differentiation by graded to binary response conversion. EMBO J. 20, 2528-2535 (2001).
-
(2001)
EMBO J.
, vol.20
, pp. 2528-2535
-
-
Becskei, A.1
Seraphin, B.2
Serrano, L.3
-
9
-
-
34548856538
-
Rational design of memory in eukaryotic cells
-
Ajo-Franklin, C.M. et al. Rational design of memory in eukaryotic cells. Genes Dev. 21, 2271-2276 (2007).
-
(2007)
Genes Dev
, vol.21
, pp. 2271-2276
-
-
Ajo-Franklin, C.M.1
-
10
-
-
0034688174
-
Construction of a genetic toggle switch in Escherichia coli
-
Gardner, T.S., Cantor, C.R. & Collins, J.J. Construction of a genetic toggle switch in Escherichia coli. Nature 403, 339-342 (2000).
-
(2000)
Nature
, vol.403
, pp. 339-342
-
-
Gardner, T.S.1
Cantor, C.R.2
Collins, J.J.3
-
11
-
-
2342578714
-
Spatiotemporal control of gene expression with pulse-generating networks
-
Basu, S., Mehreja, R., Thiberge, S., Chen, M.T. & Weiss, R. Spatiotemporal control of gene expression with pulse-generating networks. Proc. Natl. Acad. Sci. USA 101, 6355-6360 (2004).
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 6355-6360
-
-
Basu, S.1
Mehreja, R.2
Thiberge, S.3
Chen, M.T.4
Weiss, R.5
-
12
-
-
0034688173
-
A synthetic oscillatory network of transcriptional regulators
-
Elowitz, M.B. & Leibler, S. A synthetic oscillatory network of transcriptional regulators. Nature 403, 335-338 (2000).
-
(2000)
Nature
, vol.403
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
13
-
-
36248980394
-
Accurate prediction of gene feedback circuit behavior from component properties
-
Rosenfeld, N., Young, J.W., Alon, U., Swain, P.S. & Elowitz, M.B. Accurate prediction of gene feedback circuit behavior from component properties. Mol. Syst. Biol. 3, 143 (2007).
-
(2007)
Mol. Syst. Biol.
, vol.3
, pp. 143
-
-
Rosenfeld, N.1
Young, J.W.2
Alon, U.3
Swain, P.S.4
Elowitz, M.B.5
-
14
-
-
42149089190
-
A synthetic Escherichia coli predator-prey ecosystem
-
Balagadde, F.K. et al. A synthetic Escherichia coli predator-prey ecosystem. Mol. Syst. Biol. 4, 187 (2008).
-
(2008)
Mol. Syst. Biol.
, vol.4
, pp. 187
-
-
Balagadde, F.K.1
-
15
-
-
3042822415
-
An engineered epigenetic transgene switch in mammalian cells
-
Kramer, B.P. et al. An engineered epigenetic transgene switch in mammalian cells. Nat. Biotechnol. 22, 867-870 (2004).
-
(2004)
Nat. Biotechnol.
, vol.22
, pp. 867-870
-
-
Kramer, B.P.1
-
16
-
-
34547916832
-
Environmental signal integration by a modular and gate
-
Anderson, J.C., Voigt, C.A. & Arkin, A.P. Environmental signal integration by a modular AND gate. Mol. Syst. Biol. 3, 133 (2007).
-
(2007)
Mol. Syst. Biol.
, vol.3
, pp. 133
-
-
Anderson, J.C.1
Voigt, C.A.2
Arkin, A.P.3
-
17
-
-
0038271880
-
Prediction and measurement of an autoregulatory genetic module
-
Isaacs, F.J., Hasty, J., Cantor, C.R. & Collins, J.J. Prediction and measurement of an autoregulatory genetic module. Proc. Natl. Acad. Sci. USA 100, 7714-7719 (2003).
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 7714-7719
-
-
Isaacs, F.J.1
Hasty, J.2
Cantor, C.R.3
Collins, J.J.4
-
18
-
-
33745752640
-
Cellular growth and division in the Gillespie algorithm
-
Lu, T., Volfson, D., Tsimring, L. & Hasty, J. Cellular growth and division in the Gillespie algorithm. Syst. Biol. (Stevenage) 1, 121-128 (2004).
-
(2004)
Syst. Biol. (Stevenage)
, vol.1
, pp. 121-128
-
-
Lu, T.1
Volfson, D.2
Tsimring, L.3
Hasty, J.4
-
19
-
-
58549110229
-
Determination of cell fate selection during phage lambda infection
-
St-Pierre, F. & Endy, D. Determination of cell fate selection during phage lambda infection. Proc. Natl. Acad. Sci. USA 105, 20705-20710 (2008).
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 20705-20710
-
-
St-Pierre, F.1
Endy, D.2
-
20
-
-
0036208888
-
Effects of Escherichia coli physiology on growth of phage T7 in vivo and in silico
-
You, L., Suthers, P.F. & Yin, J. Effects of Escherichia coli physiology on growth of phage T7 in vivo and in silico. J. Bacteriol. 184, 1888-1894 (2002).
-
(2002)
J. Bacteriol.
, vol.184
, pp. 1888-1894
-
-
You, L.1
Suthers, P.F.2
Yin, J.3
-
21
-
-
34250303137
-
Origin of bistability in the lac Operon
-
Santillan, M., Mackey, M.C. & Zeron, E.S. Origin of bistability in the lac Operon. Biophys. J. 92, 3830-3842 (2007).
-
(2007)
Biophys. J.
, vol.92
, pp. 3830-3842
-
-
Santillan, M.1
MacKey, M.C.2
Zeron, E.S.3
-
22
-
-
54049156116
-
Determinants of bistability in induction of the Escherichia coli lac operon
-
Dreisigmeyer, D.W., Stajic, J., Nemenman, I., Hlavacek, W.S. & Wall, M.E. Determinants of bistability in induction of the Escherichia coli lac operon. IET Syst. Biol. 2, 293-303 (2008).
-
(2008)
IET Syst. Biol.
, vol.2
, pp. 293-303
-
-
Dreisigmeyer, D.W.1
Stajic, J.2
Nemenman, I.3
Hlavacek, W.S.4
Wall, M.E.5
-
23
-
-
0035578429
-
Design principles for elementary gene circuits: Elements, methods, and examples
-
Savageau, M.A. Design principles for elementary gene circuits: elements, methods, and examples. Chaos 11, 142-159 (2001).
-
(2001)
Chaos
, vol.11
, pp. 142-159
-
-
Savageau, M.A.1
-
24
-
-
43049156015
-
Cell shape and negative links in regulatory motifs together control spatial information flow in signaling networks
-
Neves, S.R. et al. Cell shape and negative links in regulatory motifs together control spatial information flow in signaling networks. Cell 133, 666-680 (2008).
-
(2008)
Cell
, vol.133
, pp. 666-680
-
-
Neves, S.R.1
-
25
-
-
34247584071
-
A synthetic biology challenge: Making cells compute
-
Tan, C., Song, H., Niemi, J. & You, L. A synthetic biology challenge: making cells compute. Mol. Biosyst. 3, 343-353 (2007).
-
(2007)
Mol. Biosyst.
, vol.3
, pp. 343-353
-
-
Tan, C.1
Song, H.2
Niemi, J.3
You, L.4
-
26
-
-
0029896020
-
Recoding: Dynamic reprogramming of translation
-
Gesteland, R.F. & Atkins, J.F. Recoding: dynamic reprogramming of translation. Annu. Rev. Biochem. 65, 741-768 (1996).
-
(1996)
Annu. Rev. Biochem.
, vol.65
, pp. 741-768
-
-
Gesteland, R.F.1
Atkins, J.F.2
-
27
-
-
22144452865
-
Hysteresis in a synthetic mammalian gene network
-
Kramer, B.P. & Fussenegger, M. Hysteresis in a synthetic mammalian gene network. Proc. Natl. Acad. Sci. USA 102, 9517-9522 (2005).
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 9517-9522
-
-
Kramer, B.P.1
Fussenegger, M.2
-
28
-
-
33846561583
-
A multistep epigenetic switch enables the stable inheritance of DNA methylation states
-
Lim, H.N. & Van Oudenaarden, A. A multistep epigenetic switch enables the stable inheritance of DNA methylation states. Nat. Genet. 39, 269-275 (2007).
-
(2007)
Nat. Genet.
, vol.39
, pp. 269-275
-
-
Lim, H.N.1
Van Oudenaarden, A.2
-
29
-
-
18744361871
-
Enhancement of cellular memory by reducing stochastic transitions
-
Acar, M., Becskei, A. & Van Oudenaarden, A. Enhancement of cellular memory by reducing stochastic transitions. Nature 435, 228-232 (2005).
-
(2005)
Nature
, vol.435
, pp. 228-232
-
-
Acar, M.1
Becskei, A.2
Van Oudenaarden, A.3
-
30
-
-
43149108161
-
A bistable Rb-E2F switch underlies the restriction point
-
Yao, G., Lee, T.J., Mori, S., Nevins, J.R. & You, L. A bistable Rb-E2F switch underlies the restriction point. Nat. Cell Biol. 10, 476-482 (2008).
-
(2008)
Nat. Cell Biol.
, vol.10
, pp. 476-482
-
-
Yao, G.1
Lee, T.J.2
Mori, S.3
Nevins, J.R.4
You, L.5
-
31
-
-
61349148091
-
Transcriptional infidelity promotes heritable phenotypic change in a bistable gene network
-
Gordon, A.J. et al. Transcriptional infidelity promotes heritable phenotypic change in a bistable gene network. PLoS Biol. 7, e44 (2009).
-
(2009)
PLoS Biol
, vol.7
-
-
Gordon, A.J.1
-
32
-
-
0036532226
-
Self-perpetuating states in signal transduction: Positive feedback, double-negative feedback and bistability
-
Ferrell, J.E. Jr. Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability. Curr. Opin. Cell Biol. 14, 140-148 (2002).
-
(2002)
Curr. Opin. Cell Biol.
, vol.14
, pp. 140-148
-
-
Ferrell Jr., J.E.1
-
33
-
-
0242268453
-
Principles of cell-free genetic circuit assembly
-
Noireaux, V., Bar-Ziv, R. & Libchaber, A. Principles of cell-free genetic circuit assembly. Proc. Natl. Acad. Sci. USA 100, 12672-12677 (2003).
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 12672-12677
-
-
Noireaux, V.1
Bar-Ziv, R.2
Libchaber, A.3
-
34
-
-
0023198428
-
Kinetic analysis of T7 RNA polymerase-promoter interactions with small synthetic promoters
-
Martin, C.T. & Coleman, J.E. Kinetic analysis of T7 RNA polymerase-promoter interactions with small synthetic promoters. Biochemistry 26, 2690-2696 (1987).
-
(1987)
Biochemistry
, vol.26
, pp. 2690-2696
-
-
Martin, C.T.1
Coleman, J.E.2
-
35
-
-
0029846428
-
Equilibrium and stopped-flow kinetic studies of interaction between T7 RNA polymerase and its promoters measured by protein and 2-aminopurine fluorescence changes
-
Jia, Y., Kumar, A. & Patel, S.S. Equilibrium and stopped-flow kinetic studies of interaction between T7 RNA polymerase and its promoters measured by protein and 2-aminopurine fluorescence changes. J. Biol. Chem. 271, 30451-30458 (1996).
-
(1996)
J. Biol. Chem.
, vol.271
, pp. 30451-30458
-
-
Jia, Y.1
Kumar, A.2
Patel, S.S.3
-
36
-
-
0000696532
-
Equilibrium and expression of the gene for bacteriophage T7 RNA polymerase
-
DaVanloo, P., Rosenberg, A.H., Dunn, J.J. & Studier, F.W. Cloning and expression of the gene for bacteriophage T7 RNA polymerase. Proc. Natl. Acad. Sci. USA 81, 2035-2039 (1984).
-
(1984)
Proc. Natl. Acad. Sci. USA
, vol.81
, pp. 2035-2039
-
-
Davanloo, P.1
Rosenberg, A.H.2
Dunn, J.J.3
Studier, F.W.4
-
37
-
-
0037112082
-
Structural basis for the transition from initiation to elongation transcription in T7 RNA polymerase
-
Yin, Y.W. & Steitz, T.A. Structural basis for the transition from initiation to elongation transcription in T7 RNA polymerase. Science 298, 1387-1395 (2002).
-
(2002)
Science
, vol.298
, pp. 1387-1395
-
-
Yin, Y.W.1
Steitz, T.A.2
-
38
-
-
0001639179
-
The growth of bacterial cultures
-
Monod, J. The growth of bacterial cultures. Annu. Rev. Microbiol. 3, 371-394 (1949).
-
(1949)
Annu. Rev. Microbiol.
, vol.3
, pp. 371-394
-
-
Monod, J.1
-
39
-
-
0026291627
-
Creation of a T7 autogene. Cloning and expression of the gene for bacteriophage T7 RNA polymerase under control of its cognate promoter
-
Dubendorff, J.W. & Studier, F.W. Creation of a T7 autogene. Cloning and expression of the gene for bacteriophage T7 RNA polymerase under control of its cognate promoter. J. Mol. Biol. 219, 61-68 (1991).
-
(1991)
J. Mol. Biol.
, vol.219
, pp. 61-68
-
-
Dubendorff, J.W.1
Studier, F.W.2
-
40
-
-
0037119587
-
Stochastic gene expression in a single cell
-
Elowitz, M.B., Levine, A.J., Siggia, E.D. & Swain, P.S. Stochastic gene expression in a single cell. Science 297, 1183-1186 (2002).
-
(2002)
Science
, vol.297
, pp. 1183-1186
-
-
Elowitz, M.B.1
Levine, A.J.2
Siggia, E.D.3
Swain, P.S.4
-
41
-
-
0036578645
-
Regulation of noise in the expression of a single gene
-
Ozbudak, E.M., Thattai, M., Kurtser, I., Grossman, A.D. & Van Oudenaarden, A. Regulation of noise in the expression of a single gene. Nat. Genet. 31, 69-73 (2002).
-
(2002)
Nat. Genet.
, vol.31
, pp. 69-73
-
-
Ozbudak, E.M.1
Thattai, M.2
Kurtser, I.3
Grossman, A.D.4
Van Oudenaarden, A.5
-
42
-
-
23144432213
-
Optimality and evolutionary tuning of the expression level of a protein
-
Dekel, E. & Alon, U. Optimality and evolutionary tuning of the expression level of a protein. Nature 436, 588-592 (2005).
-
(2005)
Nature
, vol.436
, pp. 588-592
-
-
Dekel, E.1
Alon, U.2
-
44
-
-
58149527756
-
Growth-rate-dependent partitioning of RNA polymerases in bacteria
-
Klumpp, S. & Hwa, T. Growth-rate-dependent partitioning of RNA polymerases in bacteria. Proc. Natl. Acad. Sci. USA 105, 20245-20250 (2008).
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 20245-20250
-
-
Klumpp, S.1
Hwa, T.2
-
45
-
-
0034075255
-
MRNA composition and control of bacterial gene expression
-
Liang, S.T., Xu, Y.C., Dennis, P. & Bremer, H. mRNA composition and control of bacterial gene expression. J. Bacteriol. 182, 3037-3044 (2000).
-
(2000)
J. Bacteriol.
, vol.182
, pp. 3037-3044
-
-
Liang, S.T.1
Xu, Y.C.2
Dennis, P.3
Bremer, H.4
-
46
-
-
38349096406
-
Implications of rewiring bacterial quorum sensing
-
Haseltine, E.L. & Arnold, F.H. Implications of rewiring bacterial quorum sensing. Appl. Environ. Microbiol. 74, 437-445 (2008).
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 437-445
-
-
Haseltine, E.L.1
Arnold, F.H.2
-
47
-
-
0013492121
-
The Escherichia coli flagellar transcriptional activator flhD regulates cell division through induction of the acid response gene cadA
-
Pruss, B.M., Markovic, D. & Matsumura, P. The Escherichia coli flagellar transcriptional activator flhD regulates cell division through induction of the acid response gene cadA. J. Bacteriol. 179, 3818-3821 (1997).
-
(1997)
J. Bacteriol.
, vol.179
, pp. 3818-3821
-
-
Pruss, B.M.1
Markovic, D.2
Matsumura, P.3
-
48
-
-
33846805492
-
Global gene expression profiling of asymptomatic bacteriuria Escherichia coli during biofilm growth in human urine
-
Hancock, V. & Klemm, P. Global gene expression profiling of asymptomatic bacteriuria Escherichia coli during biofilm growth in human urine. Infect. Immun. 75, 966-976 (2007).
-
(2007)
Infect. Immun.
, vol.75
, pp. 966-976
-
-
Hancock, V.1
Klemm, P.2
-
49
-
-
33644788676
-
Software for quantification of labeled bacteria from digital microscope images by automated image analysis
-
Selinummi, J., Seppala, J., Yli-Harja, O. & Puhakka, J.A. Software for quantification of labeled bacteria from digital microscope images by automated image analysis. Biotechniques 39, 859-863 (2005).
-
(2005)
Biotechniques
, vol.39
, pp. 859-863
-
-
Selinummi, J.1
Seppala, J.2
Yli-Harja, O.3
Puhakka, J.A.4
-
50
-
-
84965044576
-
Nonlinear Dynamics and Chaos: With applications to physics
-
(Perseus Books Group, New York)
-
Strogatz, S.H. Nonlinear Dynamics and Chaos: With Applications to Physics, Biology, Chemistry and Engineering (Perseus Books Group, New York, 2001).
-
(2001)
Biology, Chemistry and Engineering
-
-
Strogatz, S.H.1
|