-
1
-
-
0141484562
-
Biological networks: the tinkerer as an engineer
-
Alon U. Biological networks: the tinkerer as an engineer. Science 301 (2003) 1866-1867
-
(2003)
Science
, vol.301
, pp. 1866-1867
-
-
Alon, U.1
-
3
-
-
34249079154
-
Network motifs: theory and experimental approaches
-
Alon U. Network motifs: theory and experimental approaches. Nat. Rev. Genet. 8 (2007) 450-461
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 450-461
-
-
Alon, U.1
-
4
-
-
33645048458
-
A mathematical investigation of a Clock and Wavefront model for somitogenesis
-
Baker R.E., Schnell S., and Maini P.K. A mathematical investigation of a Clock and Wavefront model for somitogenesis. J. Math. Biol. 52 (2006) 458-482
-
(2006)
J. Math. Biol.
, vol.52
, pp. 458-482
-
-
Baker, R.E.1
Schnell, S.2
Maini, P.K.3
-
5
-
-
3343020085
-
Integrative analysis of cell cycle control in budding yeast
-
Chen K.C., Calzone L., Csikasz-Nagy A., Cross F.R., Novak B., and Tyson J.J. Integrative analysis of cell cycle control in budding yeast. Mol. Biol. Cell. 15 (2004) 3841-3862
-
(2004)
Mol. Biol. Cell.
, vol.15
, pp. 3841-3862
-
-
Chen, K.C.1
Calzone, L.2
Csikasz-Nagy, A.3
Cross, F.R.4
Novak, B.5
Tyson, J.J.6
-
6
-
-
0017122064
-
A clock and wavefront model for control of the number of repeated structures during animal morphogenesis
-
Cooke J., and Zeeman E.C. A clock and wavefront model for control of the number of repeated structures during animal morphogenesis. J. Theor. Biol. 58 (1976) 455-476
-
(1976)
J. Theor. Biol.
, vol.58
, pp. 455-476
-
-
Cooke, J.1
Zeeman, E.C.2
-
7
-
-
33744792286
-
Analysis of a generic model of eukaryotic cell-cycle regulation
-
Csikász-Nagy A., Battogtokh D., Chen K.C., Novák B., and Tyson J.J. Analysis of a generic model of eukaryotic cell-cycle regulation. Biophys. J. 90 (2006) 4361-4379
-
(2006)
Biophys. J.
, vol.90
, pp. 4361-4379
-
-
Csikász-Nagy, A.1
Battogtokh, D.2
Chen, K.C.3
Novák, B.4
Tyson, J.J.5
-
8
-
-
0001755071
-
AUTO: a program for the automatic bifurcation analysis of autonomous systems
-
(available at
-
Doedel E.J. AUTO: a program for the automatic bifurcation analysis of autonomous systems. Cong. Num. 30 (1981) 265-384. http://indy.cs.concordia/auto/ (available at
-
(1981)
Cong. Num.
, vol.30
, pp. 265-384
-
-
Doedel, E.J.1
-
9
-
-
0033593306
-
Molecular bases for circadian clocks
-
Dunlap J.C. Molecular bases for circadian clocks. Cell 96 (1999) 271-290
-
(1999)
Cell
, vol.96
, pp. 271-290
-
-
Dunlap, J.C.1
-
10
-
-
0034688173
-
A synthetic oscillatory network of transcriptional regulators
-
Elowitz M.B., and Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature 403 (2000) 335-338
-
(2000)
Nature
, vol.403
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
11
-
-
84981690399
-
Attenuation of the petal movement rhythm in Kalanchoë with light pulses
-
Engelmann W., Johnsson A., Kobler H.G., and Schimmel M. Attenuation of the petal movement rhythm in Kalanchoë with light pulses. Physiol. Plant 43 (1978) 68-76
-
(1978)
Physiol. Plant
, vol.43
, pp. 68-76
-
-
Engelmann, W.1
Johnsson, A.2
Kobler, H.G.3
Schimmel, M.4
-
12
-
-
85194585816
-
-
Ermentrout, B., 2002. Simulating, analyzing, and animating dynamical systems: a guide to XPPAUT for Researchers and Students, Software Environ. Tools 14, SIAM, Philadelphia (software available at http://www.pitt.edu/phase/).
-
Ermentrout, B., 2002. Simulating, analyzing, and animating dynamical systems: a guide to XPPAUT for Researchers and Students, Software Environ. Tools 14, SIAM, Philadelphia (software available at http://www.pitt.edu/phase/).
-
-
-
-
13
-
-
3342965723
-
Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing
-
Garcia-Ojalvo J., Elowitz M.B., and Strogatz S.H. Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing. Proc. Natl. Acad. Sci. U.S.A. 101 (2004) 10955-10960
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, pp. 10955-10960
-
-
Garcia-Ojalvo, J.1
Elowitz, M.B.2
Strogatz, S.H.3
-
14
-
-
0034688174
-
Construction of a genetic toggle switch in Escherichia coli
-
Gardner T.S., Cantor C.R., and Collins J.J. Construction of a genetic toggle switch in Escherichia coli. Nature 403 (2000) 339-342
-
(2000)
Nature
, vol.403
, pp. 339-342
-
-
Gardner, T.S.1
Cantor, C.R.2
Collins, J.J.3
-
15
-
-
0015609281
-
The logical analysis of continuous, non-linear biochemical control networks
-
Glass L., and Kauffman S.A. The logical analysis of continuous, non-linear biochemical control networks. J. Theor. Biol. 39 (1973) 103-129
-
(1973)
J. Theor. Biol.
, vol.39
, pp. 103-129
-
-
Glass, L.1
Kauffman, S.A.2
-
17
-
-
34250684094
-
Sharp developmental thresholds defined through bistability by antagonistic gradients of retinoic acid and FGF signaling
-
Goldbeter A., Gonze D., and Pourquié O. Sharp developmental thresholds defined through bistability by antagonistic gradients of retinoic acid and FGF signaling. Dev. Dyn. 236 (2007) 1495-1508
-
(2007)
Dev. Dyn.
, vol.236
, pp. 1495-1508
-
-
Goldbeter, A.1
Gonze, D.2
Pourquié, O.3
-
18
-
-
42449157505
-
Modeling the segmentation clock as a network of coupled oscillations in the Notch, Wnt and FGF signaling pathways
-
Goldbeter A., and Pourquié O. Modeling the segmentation clock as a network of coupled oscillations in the Notch, Wnt and FGF signaling pathways. J. Theor. Biol. 252 (2008) 574-585
-
(2008)
J. Theor. Biol.
, vol.252
, pp. 574-585
-
-
Goldbeter, A.1
Pourquié, O.2
-
19
-
-
0014319313
-
Mathematics of cellular control processes. I. Negative feedback to one gene
-
Griffith J.S. Mathematics of cellular control processes. I. Negative feedback to one gene. J. Theor. Biol. 20 (1968) 202-208
-
(1968)
J. Theor. Biol.
, vol.20
, pp. 202-208
-
-
Griffith, J.S.1
-
20
-
-
0014318637
-
Mathematics of cellular control processes. II. Positive feedback to one gene
-
Griffith J.S. Mathematics of cellular control processes. II. Positive feedback to one gene. J. Theor. Biol. 20 (1968) 209-216
-
(1968)
J. Theor. Biol.
, vol.20
, pp. 209-216
-
-
Griffith, J.S.1
-
21
-
-
0006092502
-
Designer gene networks: towards fundamental cellular control
-
Hasty J., Isaacs F., Dolnik M., McMillen D., and Collins J.J. Designer gene networks: towards fundamental cellular control. Chaos 11 (2001) 207-220
-
(2001)
Chaos
, vol.11
, pp. 207-220
-
-
Hasty, J.1
Isaacs, F.2
Dolnik, M.3
McMillen, D.4
Collins, J.J.5
-
22
-
-
54249116230
-
Genetic regulatory mechanisms in the synthesis of proteins
-
Jacob F., and Monod J. Genetic regulatory mechanisms in the synthesis of proteins. J. Mol. Biol. 3 (1961) 318-356
-
(1961)
J. Mol. Biol.
, vol.3
, pp. 318-356
-
-
Jacob, F.1
Monod, J.2
-
23
-
-
0034045290
-
Toggles and oscillators: new genetic circuit designs
-
Judd E.M., Laub M.T., and McAdams H.H. Toggles and oscillators: new genetic circuit designs. Bioessays 22 (2000) 507-509
-
(2000)
Bioessays
, vol.22
, pp. 507-509
-
-
Judd, E.M.1
Laub, M.T.2
McAdams, H.H.3
-
24
-
-
33644524741
-
Cell-signalling dynamics in time and space
-
Kholodenko B.N. Cell-signalling dynamics in time and space. Nat. Rev. Mol. Cell. Biol. 7 (2006) 165-176
-
(2006)
Nat. Rev. Mol. Cell. Biol.
, vol.7
, pp. 165-176
-
-
Kholodenko, B.N.1
-
25
-
-
38349013623
-
Coupled feedback loops form dynamic motifs of cellular networks
-
Kim J.R., Yoon Y., and Cho K.H. Coupled feedback loops form dynamic motifs of cellular networks. Biophys. J. 94 (2008) 359-365
-
(2008)
Biophys. J.
, vol.94
, pp. 359-365
-
-
Kim, J.R.1
Yoon, Y.2
Cho, K.H.3
-
26
-
-
2942614884
-
Programmable cells: interfacing natural and engineered gene networks
-
Kobayashi H., Kaern M., Araki M., Chung K., Gardner T.S., Cantor C.R., and Collins J.J. Programmable cells: interfacing natural and engineered gene networks. Proc. Natl. Acad. Sci. U.S.A. 101 (2004) 8414-8419
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, pp. 8414-8419
-
-
Kobayashi, H.1
Kaern, M.2
Araki, M.3
Chung, K.4
Gardner, T.S.5
Cantor, C.R.6
Collins, J.J.7
-
27
-
-
0035016219
-
A molecular explanation for the long-term suppression of circadian rhythms by a single light pulse
-
Leloup J.C., and Goldbeter A. A molecular explanation for the long-term suppression of circadian rhythms by a single light pulse. Am. J. Physiol. Regul. Integr. Comp. Physiol. 280 (2001) R1206-R1212
-
(2001)
Am. J. Physiol. Regul. Integr. Comp. Physiol.
, vol.280
-
-
Leloup, J.C.1
Goldbeter, A.2
-
29
-
-
43049163961
-
The role of dynamic stimulation pattern in the analysis of bistable intracellular networks
-
Millat T., Sreenath S.N., Soebiyanto R.P., Avva J., Cho K.H., and Wolkenhauer O. The role of dynamic stimulation pattern in the analysis of bistable intracellular networks. Biosystems 92 (2008) 270-281
-
(2008)
Biosystems
, vol.92
, pp. 270-281
-
-
Millat, T.1
Sreenath, S.N.2
Soebiyanto, R.P.3
Avva, J.4
Cho, K.H.5
Wolkenhauer, O.6
-
30
-
-
0037174670
-
Network motifs: simple building blocks of complex networks
-
Milo R., Shen-Orr S., Itzkovitz S., Kashtan N., Chklovskii D., and Alon U. Network motifs: simple building blocks of complex networks. Science 298 (2002) 824-827
-
(2002)
Science
, vol.298
, pp. 824-827
-
-
Milo, R.1
Shen-Orr, S.2
Itzkovitz, S.3
Kashtan, N.4
Chklovskii, D.5
Alon, U.6
-
31
-
-
0001389945
-
Enzyme induction as an all-or-non phenomenon
-
Novick A., and Weiner M. Enzyme induction as an all-or-non phenomenon. Proc. Natl. Acad. Sci. U.S.A. 1957 (1957) 553-566
-
(1957)
Proc. Natl. Acad. Sci. U.S.A.
, vol.1957
, pp. 553-566
-
-
Novick, A.1
Weiner, M.2
-
32
-
-
1442354192
-
Multistability in the lactose utilization network of Escherichia coli
-
Ozbudak E.M., Thattai M., Lim H.N., Shraiman B.I., and Van Oudenaarden A. Multistability in the lactose utilization network of Escherichia coli. Nature 427 (2004) 737-740
-
(2004)
Nature
, vol.427
, pp. 737-740
-
-
Ozbudak, E.M.1
Thattai, M.2
Lim, H.N.3
Shraiman, B.I.4
Van Oudenaarden, A.5
-
33
-
-
45249121810
-
A proposed mechanism for the interaction of the segmentation clock and the determination front in somitogenesis
-
Santillán M., and Mackey M.C. A proposed mechanism for the interaction of the segmentation clock and the determination front in somitogenesis. PLoS ONE 3 (2008) e1561
-
(2008)
PLoS ONE
, vol.3
-
-
Santillán, M.1
Mackey, M.C.2
-
34
-
-
0036578795
-
Network motifs in the transcriptional regulation network of Escherichia coli
-
Shen-Orr S.S., Milo R., Mangan S., and Alon U. Network motifs in the transcriptional regulation network of Escherichia coli. Nat. Genet. 31 (2002) 64-68
-
(2002)
Nat. Genet.
, vol.31
, pp. 64-68
-
-
Shen-Orr, S.S.1
Milo, R.2
Mangan, S.3
Alon, U.4
-
35
-
-
13844284450
-
Motifs in brain networks
-
Sporns O., and Kotter R. Motifs in brain networks. PLoS Biol. 2 (2004) e369
-
(2004)
PLoS Biol.
, vol.2
-
-
Sporns, O.1
Kotter, R.2
-
36
-
-
0033055592
-
The modularity of biological regulatory networks
-
Thieffry D., and Romero D. The modularity of biological regulatory networks. Biosystems 50 (1999) 49-59
-
(1999)
Biosystems
, vol.50
, pp. 49-59
-
-
Thieffry, D.1
Romero, D.2
-
37
-
-
34548327206
-
Dynamical roles of biological regulatory circuits
-
Thieffry D. Dynamical roles of biological regulatory circuits. Brief Bioinform. 8 (2007) 220-225
-
(2007)
Brief Bioinform.
, vol.8
, pp. 220-225
-
-
Thieffry, D.1
-
39
-
-
33744811457
-
Stochastic models for regulatory networks of the genetic toggle switch
-
Tian T., and Burrage K. Stochastic models for regulatory networks of the genetic toggle switch. Proc. Natl. Acad. Sci. U.S.A. 103 (2006) 8372-8377
-
(2006)
Proc. Natl. Acad. Sci. U.S.A.
, vol.103
, pp. 8372-8377
-
-
Tian, T.1
Burrage, K.2
-
40
-
-
46849090495
-
Robust, tunable biological oscillations from interlinked positive and negative feedback loops
-
Tsai T.Y., Choi Y.S., Ma W., Pomerening J.R., Tang C., and Ferrell. Robust, tunable biological oscillations from interlinked positive and negative feedback loops. Science 321 (2008) 126-129
-
(2008)
Science
, vol.321
, pp. 126-129
-
-
Tsai, T.Y.1
Choi, Y.S.2
Ma, W.3
Pomerening, J.R.4
Tang, C.5
Ferrell6
-
41
-
-
46249099836
-
Biological switches and clocks
-
Tyson J.J., Albert R., Goldbeter A., Ruoff P., and Sible J. Biological switches and clocks. J. R. Soc. Interface 5 (2008) S1-S8
-
(2008)
J. R. Soc. Interface
, vol.5
-
-
Tyson, J.J.1
Albert, R.2
Goldbeter, A.3
Ruoff, P.4
Sible, J.5
-
42
-
-
0037376655
-
Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell
-
Tyson J.J., Chen K.C., and Novak B. Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell. Curr. Opin. Cell Biol. 15 (2003) 221-231
-
(2003)
Curr. Opin. Cell Biol.
, vol.15
, pp. 221-231
-
-
Tyson, J.J.1
Chen, K.C.2
Novak, B.3
-
43
-
-
0002275384
-
The dynamics of feedback control circuits in biochemical pathways
-
Tyson J.J., and Othmer H.G. The dynamics of feedback control circuits in biochemical pathways. Prog. Theor. Biol. 5 (1978) 1-62
-
(1978)
Prog. Theor. Biol.
, vol.5
, pp. 1-62
-
-
Tyson, J.J.1
Othmer, H.G.2
-
44
-
-
38749133407
-
Noise-induced switches in network systems of the genetic toggle switch
-
Wang J., Zhang J., Yuan Z., and Zhou T. Noise-induced switches in network systems of the genetic toggle switch. BMC Syst. Biol. 1 (2007) 50
-
(2007)
BMC Syst. Biol.
, vol.1
, pp. 50
-
-
Wang, J.1
Zhang, J.2
Yuan, Z.3
Zhou, T.4
-
45
-
-
33747889656
-
Synchronizing a multicellular system by external input: an artificial control strategy
-
Wang R., Chen L., and Aihara K. Synchronizing a multicellular system by external input: an artificial control strategy. Bioinformatics 22 (2006) 1775-1781
-
(2006)
Bioinformatics
, vol.22
, pp. 1775-1781
-
-
Wang, R.1
Chen, L.2
Aihara, K.3
-
46
-
-
0014838120
-
Integrated view of resetting a circadian clock
-
Winfree A.T. Integrated view of resetting a circadian clock. J. Theor. Biol. 28 (1970) 327-374
-
(1970)
J. Theor. Biol.
, vol.28
, pp. 327-374
-
-
Winfree, A.T.1
-
47
-
-
0035458732
-
Time zones: a comparative genetics of circadian clocks
-
Young M.W., and Kay S.A. Time zones: a comparative genetics of circadian clocks. Nat. Rev. Genet. 2 (2001) 702-715
-
(2001)
Nat. Rev. Genet.
, vol.2
, pp. 702-715
-
-
Young, M.W.1
Kay, S.A.2
-
48
-
-
54749118545
-
Synchronization of genetic oscillators
-
Zhou T., Zhang J., Yuan Z., and Chen L. Synchronization of genetic oscillators. Chaos 18 (2008) 037126
-
(2008)
Chaos
, vol.18
, pp. 037126
-
-
Zhou, T.1
Zhang, J.2
Yuan, Z.3
Chen, L.4
|