-
2
-
-
33745454125
-
Synthetic biology: New engineering rules for an emerging discipline
-
2006.0028. (doi:10.1038/msb4100073)
-
Andrianantoandro, E., Basu, S., Karig, D. K. & Weiss, R. 2006 Synthetic biology: new engineering rules for an emerging discipline. Mol. Syst. Biol. 2, 2006.0028. (doi:10.1038/msb4100073)
-
(2006)
Mol. Syst. Biol.
, vol.2
-
-
Andrianantoandro, E.1
Basu, S.2
Karig, D.K.3
Weiss, R.4
-
3
-
-
64849104716
-
Pulsatile stimulation determines timing and specificity of NF-kB-dependent transcription
-
doi:10.1126/science.1164860
-
Ashall, L. et al. 2009 Pulsatile stimulation determines timing and specificity of NF-kB-dependent transcription. Science 324, 242-246. (doi:10.1126/science.1164860)
-
(2009)
Science
, vol.324
, pp. 242-246
-
-
Ashall, L.1
-
4
-
-
0038241770
-
Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli
-
doi:10.1016/S0092-8674(03)00346-5
-
Atkinson, M. R., Savageau, M. A., Myers, J. T. & Ninfa, A. J. 2003 Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli. Cell 113, 597-607. (doi:10.1016/S0092-8674(03) 00346-5)
-
(2003)
Cell
, vol.113
, pp. 597-607
-
-
Atkinson, M.R.1
Savageau, M.A.2
Myers, J.T.3
Ninfa, A.J.4
-
5
-
-
68949215494
-
Microfluidic devices for measuring gene network dynamics in single cells
-
doi:10.1038/nrg2625
-
Bennett, M. R. & Hasty, J. 2009 Microfluidic devices for measuring gene network dynamics in single cells. Nat. Rev. Genet. 10, 628-638. (doi:10.1038/nrg2625)
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 628-638
-
-
Bennett, M.R.1
Hasty, J.2
-
6
-
-
48649087364
-
Mesp1 acts as a master regulator of multipotent cardiovascular progenitor specification
-
doi:10.1016/j.stem.2008.06.009
-
Bondue, A., Lapouge, G., Paulissen, C., Semeraro, C., Iacovino, M., Kyba, M. & Blanpain, C. 2008 Mesp1 acts as a master regulator of multipotent cardiovascular progenitor specification. Cell Stem Cell 3, 69-84. (doi:10.1016/j.stem.2008.06.009)
-
(2008)
Cell Stem Cell
, vol.3
, pp. 69-84
-
-
Bondue, A.1
Lapouge, G.2
Paulissen, C.3
Semeraro, C.4
Iacovino, M.5
Kyba, M.6
Blanpain, C.7
-
7
-
-
32644449540
-
Target hub proteins serve as master regulators of development in yeast
-
DOI 10.1101/gad.1389306
-
Borneman, A. R., Leigh-Bell, J. A., Yu, H., Bertone, P., Gerstein, M. & Snyder, M. 2006 Target hub proteins serve as master regulators of development in yeast. Genes Dev. 20, 435-448. (doi:10.1101/gad.1389306) (Pubitemid 43244398)
-
(2006)
Genes and Development
, vol.20
, Issue.4
, pp. 435-448
-
-
Borneman, A.R.1
Leigh-Bell, J.A.2
Yu, H.3
Bertone, P.4
Gerstein, M.5
Snyder, M.6
-
8
-
-
1842525289
-
-
(illustrated edn). Berlin, Germany: Springer
-
Braun, O. & Kivshar, Y. 2004 The Frenkel-Kontorova model. Concepts, methods, and applications (illustrated edn). Berlin, Germany: Springer.
-
(2004)
The Frenkel-Kontorova Model. Concepts, Methods, and Applications
-
-
Braun, O.1
Kivshar, Y.2
-
10
-
-
0034688173
-
A synthetic oscillatory network of transcriptional regulators
-
doi:10.1038/35002125
-
Elowitz, M. B. & Leibler, S. 2000 A synthetic oscillatory network of transcriptional regulators. Nature 403, 335-338. (doi:10.1038/35002125)
-
(2000)
Nature
, vol.403
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
12
-
-
0037864375
-
-
3rd edn, version 1.12
-
Galassi, M., Davies, J., Theiler, J., Gough, B., Jungman, G., Alken, P., Booth, M. & Ross, F. 2009 GNU scientific library reference manual, 3rd edn, version 1.12.
-
(2009)
GNU Scientific Library Reference Manual
-
-
Galassi, M.1
Davies, J.2
Theiler, J.3
Gough, B.4
Jungman, G.5
Alken, P.6
Booth, M.7
Ross, F.8
-
13
-
-
0034688174
-
Construction of a genetic toggle switch in Escherichia coli
-
doi:10.1038/35002131
-
Gardner, T., Cantor, C. R. & Collins, J. J. 2000 Construction of a genetic toggle switch in Escherichia coli. Nature 403, 339-342. (doi:10.1038/35002131)
-
(2000)
Nature
, vol.403
, pp. 339-342
-
-
Gardner, T.1
Cantor, C.R.2
Collins, J.J.3
-
14
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
doi:10.1021/j100540a008
-
Gillespie, D. T. 1977 Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem. 81, 2340-2361. (doi:10.1021/j100540a008)
-
(1977)
J. Phys. Chem.
, vol.81
, pp. 2340-2361
-
-
Gillespie, D.T.1
-
15
-
-
0028801765
-
Metabolic load and heterologous gene expression
-
doi:10.1016/0734-9750(95)00004-A
-
Glick, B. R. 1995 Metabolic load and heterologous gene expression. Biotechnol. Adv. 13, 247-261. (doi:10.1016/0734-9750(95)00004-A)
-
(1995)
Biotechnol. Adv.
, vol.13
, pp. 247-261
-
-
Glick, B.R.1
-
16
-
-
0002020770
-
On the efficiency of certain quasi-random sequences of points in evaluating multi-dimensional integrals
-
doi:10.1007/BF01386213
-
Halton, J. 1960 On the efficiency of certain quasi-random sequences of points in evaluating multi-dimensional integrals. Numer. Math. 2, 84-90. (doi:10.1007/BF01386213)
-
(1960)
Numer. Math.
, vol.2
, pp. 84-90
-
-
Halton, J.1
-
17
-
-
34447336982
-
Perfect sampling of the master equation for gene regulatory networks
-
DOI 10.1529/biophysj.106.099390
-
Hemberg, M. & Barahona, M. 2007 Perfect sampling of the master equation for gene regulatory networks. Biophys. J. 93, 401-410. (doi:10.1529/biophysj.106.099390) (Pubitemid 47057807)
-
(2007)
Biophysical Journal
, vol.93
, Issue.2
, pp. 401-410
-
-
Hemberg, M.1
Barahona, M.2
-
18
-
-
2342476606
-
Oscillating Global Regulators Control the Genetic Circuit Driving a Bacterial Cell Cycle
-
DOI 10.1126/science.1095191
-
Holtzendorff, J., Hung, D., Brende, P., Reisenauer, A., Viollier, P. H., McAdams, H. H. & Shapiro, L. 2004 Oscillating global regulators control the genetic circuit driving a bacterial cell cycle. Science 304, 983-987. (doi:10.1126/science.1095191) (Pubitemid 38638090)
-
(2004)
Science
, vol.304
, Issue.5673
, pp. 983-987
-
-
Holtzendorff, J.1
Hung, D.2
Brende, P.3
Reisenauer, A.4
Viollier, P.H.5
McAdams, H.H.6
Shapiro, L.7
-
19
-
-
0036009115
-
NF-kB at the crossroads of life and death
-
doi:10.1038/ni0302-221
-
Karin, M. & Lin, A. 2002 NF-kB at the crossroads of life and death. Nat. Immunol. 3, 221-227. (doi:10.1038/ni0302-221)
-
(2002)
Nat. Immunol.
, vol.3
, pp. 221-227
-
-
Karin, M.1
Lin, A.2
-
20
-
-
2942614884
-
Programmable cells: Interfacing natural and engineered gene networks
-
doi:10.1073/pnas.0402940101
-
Kobayashi, H., Kaern, M. M., Araki, C. K., Gardner, T. S., Cantor, C. R. & Collins, J. J. 2004 Programmable cells: interfacing natural and engineered gene networks. Proc. Natl Acad. Sci. USA 101, 8414-8419. (doi:10.1073/pnas. 0402940101)
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 8414-8419
-
-
Kobayashi, H.1
Kaern, M.M.2
Araki, C.K.3
Gardner, T.S.4
Cantor, C.R.5
Collins, J.J.6
-
21
-
-
28544442417
-
Synthetic biology: Engineering Escherichia coli to see light
-
doi:10.1038/nature04405
-
Levskaya, A. et al. 2005 Synthetic biology: engineering Escherichia coli to see light. Nature 438, 441-442. (doi:10.1038/nature04405)
-
(2005)
Nature
, vol.438
, pp. 441-442
-
-
Levskaya, A.1
-
22
-
-
34247243159
-
Sox17 is essential for the specification of cardiac mesoderm in embryonic stem cells
-
doi:10.1073/pnas.0609100104
-
Liu, Y., Asakura, M., Inoue, H., Nakamura, T., Sano, M., Niu, Z., Chen, M., Schwartz, R. J. & Schneider, M. D. 2007 Sox17 is essential for the specification of cardiac mesoderm in embryonic stem cells. Proc. Natl Acad. Sci. USA 104, 3859-3864. (doi:10.1073/pnas.0609100104)
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 3859-3864
-
-
Liu, Y.1
Asakura, M.2
Inoue, H.3
Nakamura, T.4
Sano, M.5
Niu, Z.6
Chen, M.7
Schwartz, R.J.8
Schneider, M.D.9
-
23
-
-
50549103571
-
Computational design of synthetic gene circuits with composable parts
-
doi:10.1093/bioinformatics/btn330
-
Marchisio, M. & Stelling, J. 2008 Computational design of synthetic gene circuits with composable parts. Bioinformatics 24, 1903-1910. (doi:10.1093/bioinformatics/btn330)
-
(2008)
Bioinformatics
, vol.24
, pp. 1903-1910
-
-
Marchisio, M.1
Stelling, J.2
-
24
-
-
1842607226
-
Flight control century: Triumphs of the systems approach
-
doi:10.2514/1.4586
-
McRuer, D. & Graham, D. 2004 Flight control century: triumphs of the systems approach. J. Guid. Control Dynam. 27, 161-173. (doi:10.2514/1.4586)
-
(2004)
J. Guid. Control Dynam.
, vol.27
, pp. 161-173
-
-
McRuer, D.1
Graham, D.2
-
25
-
-
50349086894
-
Timing and dynamics of single cell gene expression in the arabinose utilization system
-
doi:10.1529/biophysj.107.127191
-
Megerle, J. A., Fritz, G., Gerland, U., Jung, K. & Rädler, J. O. 2008 Timing and dynamics of single cell gene expression in the arabinose utilization system. Biophys. J. 95, 2103-2115. (doi:10.1529/biophysj.107.127191)
-
(2008)
Biophys. J.
, vol.95
, pp. 2103-2115
-
-
Megerle, J.A.1
Fritz, G.2
Gerland, U.3
Jung, K.4
Rädler, J.O.5
-
27
-
-
33751031876
-
A generalized model of the repressilator
-
doi:10.1007/s00285-006-0035-9
-
Müller, S., Hofbauer, J., Endler, L., Flamm, C., Widder, S. & Schuster, P. 2006 A generalized model of the repressilator. J. Math. Biol. 53, 905-937. (doi:10.1007/s00285-006-0035-9)
-
(2006)
J. Math. Biol.
, vol.53
, pp. 905-937
-
-
Müller, S.1
Hofbauer, J.2
Endler, L.3
Flamm, C.4
Widder, S.5
Schuster, P.6
-
28
-
-
43749098070
-
NF-kB and cancer - Identifying targets and mechanisms
-
doi:10.1016/j.gde.2008.01.020
-
Naugler, W. E. & Karin, M. 2008 NF-kB and cancer - identifying targets and mechanisms. Curr. Opin. Genet. Dev. 18, 19-26. (doi:10.1016/j.gde. 2008.01.020)
-
(2008)
Curr. Opin. Genet. Dev.
, vol.18
, pp. 19-26
-
-
Naugler, W.E.1
Karin, M.2
-
29
-
-
0038115065
-
The segmentation clock: Converting embryonic time into spatial pattern
-
DOI 10.1126/science.1085887
-
Pourquie, O. 2003 The segmentation clock: converting embryonic time into spatial pattern. Science 301, 328-330. (doi:10.1126/science.1085887) (Pubitemid 36877057)
-
(2003)
Science
, vol.301
, Issue.5631
, pp. 328-330
-
-
Pourquie, O.1
-
30
-
-
0003474751
-
-
2nd edn. Cambridge, UK: Cambridge University Press
-
Press, W. H., Teukolsky, S. A., Vetterling, W. T. & Flannery, B. P. 1992 Numerical recipes in C: the art of scientific computing, 2nd edn. Cambridge, UK: Cambridge University Press.
-
(1992)
Numerical Recipes in C: The Art of Scientific Computing
-
-
Press, W.H.1
Teukolsky, S.A.2
Vetterling, W.T.3
Flannery, B.P.4
-
31
-
-
0036789439
-
A light-switchable gene promoter system
-
doi:10.1038/nbt734
-
Shimizu-Sato, S., Huq, E., Tepperman, J. M. & Quail, P. H. 2002 A light-switchable gene promoter system. Nat. Biotechol. 20, 1041-1044. (doi:10.1038/nbt734)
-
(2002)
Nat. Biotechol.
, vol.20
, pp. 1041-1044
-
-
Shimizu-Sato, S.1
Huq, E.2
Tepperman, J.M.3
Quail, P.H.4
-
32
-
-
0023080895
-
Oscillations and multiple steady states in a cyclic gene model with repression
-
doi:10.1007/BF00276388
-
Smith, H., 1987 Oscillations and multiple steady states in a cyclic gene model with repression. J. Math. Biol. 25, 169-190. (doi:10.1007/BF00276388)
-
(1987)
J. Math. Biol.
, vol.25
, pp. 169-190
-
-
Smith, H.1
-
33
-
-
34247886107
-
Identification of dimerization phase transitions driven by Peierls and other mechanisms
-
doi:10.1016/j.cplett.2007.04.024
-
Soos, Z. 2007 Identification of dimerization phase transitions driven by Peierls and other mechanisms. Chem. Phys. Lett. 440, 87-91. (doi:10.1016/j. cplett.2007.04.024)
-
(2007)
Chem. Phys. Lett.
, vol.440
, pp. 87-91
-
-
Soos, Z.1
-
34
-
-
66249136447
-
Non-genetic origins of cell-to-cell variability in TRAIL-induced apoptosis
-
doi:10.1038/nature08012
-
Spencer, S. L., Gaudet, S., Albeck, J. G., Burke, J. M. & Sorger, P. K. 2009 Non-genetic origins of cell-to-cell variability in TRAIL-induced apoptosis. Nature 459, 428-432. (doi:10.1038/nature08012)
-
(2009)
Nature
, vol.459
, pp. 428-432
-
-
Spencer, S.L.1
Gaudet, S.2
Albeck, J.G.3
Burke, J.M.4
Sorger, P.K.5
-
35
-
-
57049159362
-
A fast, robust and tunable synthetic gene oscillator
-
DOI 10.1038/nature07389, PII NATURE07389
-
Stricker, J., Cookson, S., Bennett, M. R., Mather, W. H., Tsimring, L. S. & Hasty, J. 2008 A fast, robust and tunable synthetic gene oscillator. Nature 456, 516-519. (doi:10.1038/nature07389) (Pubitemid 352759003)
-
(2008)
Nature
, vol.456
, Issue.7221
, pp. 516-519
-
-
Stricker, J.1
Cookson, S.2
Bennett, M.R.3
Mather, W.H.4
Tsimring, L.S.5
Hasty, J.6
-
36
-
-
33645293152
-
An excitable gene regulatory circuit induces transient cellular differentiation
-
doi:10.1038/nature04588
-
Süel, G. M., Garcia-Ojalvo, J., Liberman, V. & Elowitz, M. B. 2006 An excitable gene regulatory circuit induces transient cellular differentiation. Nature 440, 545-550. (doi:10.1038/nature04588)
-
(2006)
Nature
, vol.440
, pp. 545-550
-
-
Süel, G.M.1
Garcia-Ojalvo, J.2
Liberman, V.3
Elowitz, M.B.4
-
37
-
-
58249117722
-
A tunable synthetic mammalian oscillator
-
doi:10.1038/nature07616
-
Tigges, M., Marquez-Lago, T. T., Stelling, J. & Fussenegger, M. 2009 A tunable synthetic mammalian oscillator. Nature 457, 309-312. (doi:10.1038/nature07616)
-
(2009)
Nature
, vol.457
, pp. 309-312
-
-
Tigges, M.1
Marquez-Lago, T.T.2
Stelling, J.3
Fussenegger, M.4
-
39
-
-
57349131603
-
A genetic timer through noise-induced stabilization of an unstable state
-
doi:10.1073/pnas.0806349105
-
Turcotte, M., Garcia-Ojalvo, J. & Süel, G. M. 2008 A genetic timer through noise-induced stabilization of an unstable state. Proc. Natl Acad. Sci. USA 105, 15 732-15 737. (doi:10.1073/pnas.0806349105)
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 15732-15737
-
-
Turcotte, M.1
Garcia-Ojalvo, J.2
Süel, G.M.3
-
40
-
-
31544459496
-
Good permutations for deterministic scrambled Halton sequences in terms of L2-discrepancy
-
doi:10.1016/j.cam.2005.05.022
-
Vandewoestyne, B. & Cools, R. 2006 Good permutations for deterministic scrambled Halton sequences in terms of L2-discrepancy. J. Comput. Appl. Math. 189, 341-361. (doi:10.1016/j.cam.2005.05.022)
-
(2006)
J. Comput. Appl. Math.
, vol.189
, pp. 341-361
-
-
Vandewoestyne, B.1
Cools, R.2
-
41
-
-
0034707072
-
Notch signalling and the synchronization of the somite segmentation clock
-
doi:10.1038/35044091
-
Yun-Jin, B., Aerne, L., Smithers, L., Haddon, C., Ish-Horowicz, D. & Lewis, J. 2000 Notch signalling and the synchronization of the somite segmentation clock. Nature 408, 475-479. (doi:10.1038/35044091)
-
(2000)
Nature
, vol.408
, pp. 475-479
-
-
Yun-Jin, B.1
Aerne, L.2
Smithers, L.3
Haddon, C.4
Ish-Horowicz, D.5
Lewis, J.6
-
42
-
-
51249086247
-
SBMLSAT: A systems biology markup language (SBML) based sensitivity analysis tool
-
doi:10.1186/1471-2105-9-342
-
Zi, Z., Zheng, Y., Rundell, A. E. & Klipp, E. 2008 SBMLSAT: a systems biology markup language (SBML) based sensitivity analysis tool. BMC Bioinform. 9, 342. (doi:10.1186/1471-2105-9-342).
-
(2008)
BMC Bioinform.
, vol.9
, pp. 342
-
-
Zi, Z.1
Zheng, Y.2
Rundell, A.E.3
Klipp, E.4
|