-
1
-
-
0001422329
-
Quantitative model for gene regulation by lambda phage represser
-
Feb
-
G K Ackers, A D Johnson, and M A Shea. Quantitative model for gene regulation by lambda phage represser. Proc Natl Acad Sci U S A, 79(4):1129-1133, Feb 1982.
-
(1982)
Proc Natl Acad Sci U S A
, vol.79
, Issue.4
, pp. 1129-1133
-
-
Ackers, G.K.1
Johnson, A.D.2
Shea, M.A.3
-
2
-
-
27844541328
-
Modeling T cell antigen discrimination based on feedback control of digital ERK responses
-
Nov
-
Gregoire Altan-Bonnet and Ronald N Germain. Modeling T cell antigen discrimination based on feedback control of digital ERK responses. PLoS Biol, 3(11):e356, Nov 2005.
-
(2005)
PLoS Biol
, vol.3
, Issue.11
-
-
Altan-Bonnet, G.1
Germain, R.N.2
-
3
-
-
34047188686
-
A p53 oscillator model of dna break repair control
-
arXiv:q-bio.MN/0510002v1
-
V. Chickarmane, A. Nadim, A. Ray, and H. M. Sauro. A p53 oscillator model of dna break repair control. arXiv, arXiv:q-bio.MN/0510002v1, 2005.
-
(2005)
arXiv
-
-
Chickarmane, V.1
Nadim, A.2
Ray, A.3
Sauro, H.M.4
-
4
-
-
24644440984
-
Bifurcation discovery tool
-
V. Chickarmane, S. R. Paladugu, F. Bergmann, and H. M. Sauro. Bifurcation discovery tool. Bioinformatics, 21:3688-90, 2005.
-
(2005)
Bioinformatics
, vol.21
, pp. 3688-3690
-
-
Chickarmane, V.1
Paladugu, S.R.2
Bergmann, F.3
Sauro, H.M.4
-
5
-
-
33744792286
-
Analysis of a generic model of eukaryotic cell-cycle regulation
-
Jun
-
A Csikász-Nagy, D Battogtokh, K C Chen, B Novák, and J J Tyson. Analysis of a generic model of eukaryotic cell-cycle regulation. Biophys J, 90(12):4361-4379, Jun 2006.
-
(2006)
Biophys J
, vol.90
, Issue.12
, pp. 4361-4379
-
-
Csikász-Nagy, A.1
Battogtokh, D.2
Chen, K.C.3
Novák, B.4
Tyson, J.J.5
-
6
-
-
0033214771
-
Building a cellular switch: More lessons from a good egg
-
J. E. Ferrell. Building a cellular switch: More lessons from a good egg. BioEssays, 21:866870, 1999.
-
(1999)
BioEssays
, vol.21
, pp. 866870
-
-
Ferrell, J.E.1
-
7
-
-
0036532226
-
Self-perpetuating states in signal transduction: Positive feedback, double-negative feedback and bistability
-
J. E. Ferrell. Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability. Current Opinion in Cell Biology, 14:140-148, 2002.
-
(2002)
Current Opinion in Cell Biology
, vol.14
, pp. 140-148
-
-
Ferrell, J.E.1
-
8
-
-
0021715523
-
Ultrasensitivity in biochemical systems controlled by covalent modification, interplay between zero-order and multistep effects
-
A. Goldbeter and D. E. Koshland. Ultrasensitivity in biochemical systems controlled by covalent modification, interplay between zero-order and multistep effects. J. Biol Chem., 259:14441-7, 1984.
-
(1984)
J. Biol Chem
, vol.259
, pp. 14441-14447
-
-
Goldbeter, A.1
Koshland, D.E.2
-
9
-
-
0033518234
-
From molecular to modular cell biology
-
L. H. Hartwell, J. J. Hopfield, S. Leibler, and A. W. Murray. From molecular to modular cell biology. Nature, 402(6761 Suppl):C47-C52, 1999.
-
(1999)
Nature
, vol.402
, Issue.6761 SUPPL.
-
-
Hartwell, L.H.1
Hopfield, J.J.2
Leibler, S.3
Murray, A.W.4
-
10
-
-
0030800564
-
The reversible hill equation: How to incorporate cooperative enzymes into metabolic models
-
Aug
-
J H Hofmeyr and A Cornish-Bowden. The reversible hill equation: how to incorporate cooperative enzymes into metabolic models. Comput Appl Biosci, 13(4):377-385, Aug 1997.
-
(1997)
Comput Appl Biosci
, vol.13
, Issue.4
, pp. 377-385
-
-
Hofmeyr, J.H.1
Cornish-Bowden, A.2
-
11
-
-
3242676433
-
-
Prentice Hall PTR; 3rd edition
-
W. G. Jung. IC Op-Amp Cookbook. Prentice Hall PTR; 3rd edition, 1986.
-
(1986)
IC Op-Amp Cookbook
-
-
Jung, W.G.1
-
12
-
-
33750979409
-
Synthetic gene regulatory systems
-
Jrg Stelling Zoltan Szallasi and Vipul Periwal, editors, chapter 13, MIT Press
-
Mads Kaern and Ron Weiss. Synthetic gene regulatory systems. In Jrg Stelling Zoltan Szallasi and Vipul Periwal, editors, System Modeling in Cellular BiologyFrom Concepts to Nuts and Bolts, chapter 13, pages 269-298. MIT Press, 2006.
-
(2006)
System Modeling in Cellular BiologyFrom Concepts to Nuts and Bolts
, pp. 269-298
-
-
Kaern, M.1
Weiss, R.2
-
13
-
-
0034019315
-
Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activted protein kinase cascades
-
B. N. Kholodenko. Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activted protein kinase cascades. Eur. J. Biochem, 267:1583-1588, 2000.
-
(2000)
Eur. J. Biochem
, vol.267
, pp. 1583-1588
-
-
Kholodenko, B.N.1
-
14
-
-
4644301730
-
A benchmark for methods in reverse engineering and model discrimination: Problem formulation and solutions
-
Sep
-
A Kremling, S Fischer, K Gadkar, F J Doyle, T Sauter, E Bullinger, F Allgöwer, and E D Gilles. A benchmark for methods in reverse engineering and model discrimination: problem formulation and solutions. Genome Res, 14(9):1773-1785, Sep 2004.
-
(2004)
Genome Res
, vol.14
, Issue.9
, pp. 1773-1785
-
-
Kremling, A.1
Fischer, S.2
Gadkar, K.3
Doyle, F.J.4
Sauter, T.5
Bullinger, E.6
Allgöwer, F.7
Gilles, E.D.8
-
15
-
-
15244351549
-
Determination of elasticities, concentration and flux control coefficients from transient metabolite data using linlog kinetics
-
Mar
-
M T Kresnowati, W A van Winden, and J J Heijnen. Determination of elasticities, concentration and flux control coefficients from transient metabolite data using linlog kinetics. Metab Eng, 7(2): 142-153, Mar 2005.
-
(2005)
Metab Eng
, vol.7
, Issue.2
, pp. 142-153
-
-
Kresnowati, M.T.1
van Winden, W.A.2
Heijnen, J.J.3
-
16
-
-
0842332406
-
Dynamics of the p53-mdm2 feedback loop in individual cells
-
G. Lahav, N. Rosenfeld, A. Sigal, N. Geva-Zatorsky, A. J. Levine, M. B. Elowitz, and U. Alon". Dynamics of the p53-mdm2 feedback loop in individual cells. Nature, Genetics, 36(2):147-150, 2004.
-
(2004)
Nature, Genetics
, vol.36
, Issue.2
, pp. 147-150
-
-
Lahav, G.1
Rosenfeld, N.2
Sigal, A.3
Geva-Zatorsky, N.4
Levine, A.J.5
Elowitz, M.B.6
Alon", U.7
-
17
-
-
0037174671
-
Transcriptional regulatory networks in saccharomyces cerevisiae
-
T. I. Lee, N. J. Rinaldi, F. Robert, D. T. Odom, Z. Bar-Joseph, G. K. Gerber, N. M. Hannett, C. T. Harbison, C. M. Thompson, I. Simon, J. Zeitlinger, E. G. Jennings, H. L. Murray, D. B. Gordon, B. Ren, J. J. Wyrick, J. B. Tagne, T. L. Volkert, E. Fraenkel, D. K. Gifford, and R. A Young. Transcriptional regulatory networks in saccharomyces cerevisiae. Science, 298:799-804, 2002.
-
(2002)
Science
, vol.298
, pp. 799-804
-
-
Lee, T.I.1
Rinaldi, N.J.2
Robert, F.3
Odom, D.T.4
Bar-Joseph, Z.5
Gerber, G.K.6
Hannett, N.M.7
Harbison, C.T.8
Thompson, C.M.9
Simon, I.10
Zeitlinger, J.11
Jennings, E.G.12
Murray, H.L.13
Gordon, D.B.14
Ren, B.15
Wyrick, J.J.16
Tagne, J.B.17
Volkert, T.L.18
Fraenkel, E.19
Gifford, D.K.20
Young, R.A.21
more..
-
18
-
-
0842288229
-
Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades
-
N. I Markevich, J B Hoek, and B. N. Kholodenko. Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades. J. Cell Biol., 164:353-9, 2004.
-
(2004)
J. Cell Biol
, vol.164
, pp. 353-359
-
-
Markevich, N.I.1
Hoek, J.B.2
Kholodenko, B.N.3
-
19
-
-
0032406131
-
Non-linear optimization of biochemical pathways: Applications to metabolic engineering and parameter estimation
-
P Mendes and D Kell. Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation. Bioinformatics, 14(10):869-883, 1998.
-
(1998)
Bioinformatics
, vol.14
, Issue.10
, pp. 869-883
-
-
Mendes, P.1
Kell, D.2
-
20
-
-
78651189765
-
On the nature of allosteric transitions: A plausible model
-
May
-
J Monod, J Wyman, and J P Changeux. On the nature of allosteric transitions: A plausible model. J Mol Biol, 12:88-118, May 1965.
-
(1965)
J Mol Biol
, vol.12
, pp. 88-118
-
-
Monod, J.1
Wyman, J.2
Changeux, J.P.3
-
21
-
-
3242729569
-
Quantitative analysis of signaling networks
-
H. M. Sauro and B. N. Kholodenko. Quantitative analysis of signaling networks. Prog Biophys Mol Biol., 86:5-43, 2004.
-
(2004)
Prog Biophys Mol Biol
, vol.86
, pp. 5-43
-
-
Sauro, H.M.1
Kholodenko, B.N.2
-
23
-
-
0036578795
-
Network motifs in the transcriptional regulation network of Escherichia coli
-
May
-
Shai S Shen-Orr, Ron Milo, Shmoolik Mangan, and Uri Alon. Network motifs in the transcriptional regulation network of Escherichia coli. Nat Genet, 31(1):64-68, May 2002.
-
(2002)
Nat Genet
, vol.31
, Issue.1
, pp. 64-68
-
-
Shen-Orr, S.S.1
Milo, R.2
Mangan, S.3
Alon, U.4
-
24
-
-
0034608810
-
Modeling the fission yeast cell cycle: Quantized cycle times in weel-cdc25delta mutant cells
-
Jul
-
A Sveiczer, A Csikasz-Nagy, B Gyorffy, J J Tyson, and B Novak. Modeling the fission yeast cell cycle: quantized cycle times in weel-cdc25delta mutant cells. Proc Nad Acad Sci USA, 97(14):7865-7870, Jul 2000.
-
(2000)
Proc Nad Acad Sci USA
, vol.97
, Issue.14
, pp. 7865-7870
-
-
Sveiczer, A.1
Csikasz-Nagy, A.2
Gyorffy, B.3
Tyson, J.J.4
Novak, B.5
-
25
-
-
3042761223
-
Modelling the fission yeast cell cycle
-
Feb
-
A Sveiczer, J J Tyson, and B Novak. Modelling the fission yeast cell cycle. Brief Funct Genomic Proteomic, 2(4):298-307, Feb 2004.
-
(2004)
Brief Funct Genomic Proteomic
, vol.2
, Issue.4
, pp. 298-307
-
-
Sveiczer, A.1
Tyson, J.J.2
Novak, B.3
-
26
-
-
0037376655
-
Sniffers, buzzers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell
-
J. J Tyson, K. C. Chen, and B. Novak. Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell. Current Opinion in Cell Biology, 15:221-231, 2003.
-
(2003)
Current Opinion in Cell Biology
, vol.15
, pp. 221-231
-
-
Tyson, J.J.1
Chen, K.C.2
Novak, B.3
-
27
-
-
0000832972
-
Evidence for a negative-feedback mechanism in the biosynthesis of leucine
-
H. E. Umbarger. Evidence for a negative-feedback mechanism in the biosynthesis of leucine. Science, 123:848, 1956.
-
(1956)
Science
, vol.123
, pp. 848
-
-
Umbarger, H.E.1
-
28
-
-
12344331451
-
the jigcell model builder and run manager
-
Dec
-
M Vass, N Allen, C A Shaffer, N Ramakrishnan, L T Watson, and J J Tyson, the jigcell model builder and run manager. Bioinformatics, 20(18):3680-3681, Dec 2004.
-
(2004)
Bioinformatics
, vol.20
, Issue.18
, pp. 3680-3681
-
-
Vass, M.1
Allen, N.2
Shaffer, C.A.3
Ramakrishnan, N.4
Watson, L.T.5
Tyson, J.J.6
-
29
-
-
0141684666
-
Dynamic simulation and metabolic re-design of a branched pathway using linlog kinetics
-
D. Visser and J.J. Heijnen. Dynamic simulation and metabolic re-design of a branched pathway using linlog kinetics. Metabolic Engineering, 5:164-76, 2003.
-
(2003)
Metabolic Engineering
, vol.5
, pp. 164-176
-
-
Visser, D.1
Heijnen, J.J.2
-
32
-
-
0001738507
-
Control of pyrimidine biosynthesis in escherichia coli by a feed-back mechanism
-
R. A. Yates and A. B. Pardee. Control of pyrimidine biosynthesis in escherichia coli by a feed-back mechanism. J. Biol. Chem., 221:757-770, 1956.
-
(1956)
J. Biol. Chem
, vol.221
, pp. 757-770
-
-
Yates, R.A.1
Pardee, A.B.2
|