-
1
-
-
0742305866
-
'Network biology: Understanding the cell's functional organization'
-
Barabasi, A.U., and Oltvai, Z.N.: 'Network biology: understanding the cell's functional organization', Nat. Rev. Genet., 2004, 5, p. 101-113
-
(2004)
Nat. Rev. Genet.
, vol.5
, pp. 101-113
-
-
Barabasi, A.L.1
Oltvai, Z.N.2
-
2
-
-
25844439570
-
'Disease gene discovery through integrative genomics'
-
Giallourakis, C., Henson, C., Reich, M., Xie, X., and Mootha, V.K.: 'Disease gene discovery through integrative genomics', Annu. Rev. Genomics Hum. Genet., 2005, 6, p. 381-406
-
(2005)
Annu. Rev. Genomics Hum. Genet.
, vol.6
, pp. 381-406
-
-
Giallourakis, C.1
Henson, C.2
Reich, M.3
Xie, X.4
Mootha, V.K.5
-
3
-
-
39149109286
-
'Integrated approaches to uncovering transcription regulatory networks in mammalian cells'
-
Tan, K., Tegnér, J., and Ravasi, T.: 'Integrated approaches to uncovering transcription regulatory networks in mammalian cells', Genomics, 2008, 91, (3), p. 219-231
-
(2008)
Genomics
, vol.91
, Issue.3
, pp. 219-231
-
-
Tan, K.1
Tegnér, J.2
Ravasi, T.3
-
4
-
-
33845730788
-
'Perturbations to uncover gene networks'
-
Tegnér, J., and Björkegren, J.: 'Perturbations to uncover gene networks', Trends. Genet., 2007, 23, p. 34-41
-
(2007)
Trends. Genet.
, vol.23
, pp. 34-41
-
-
Tegnér, J.1
Björkegren, J.2
-
5
-
-
0031990984
-
'A model for circadian rhythms in Drosophila incorporating the formation of a complex between the PER and TIM proteins'
-
p. 70-87
-
Leloup, J.-C., and Goldbeter, A.: 'A model for circadian rhythms in Drosophila incorporating the formation of a complex between the PER and TIM proteins', J. Biol. Rhythms, 1998, 13, p. 70-87 0748-7304
-
(1998)
J. Biol. Rhythms
, vol.13
, pp. 0748-7304
-
-
Leloup, J.-C.1
Goldbeter, A.2
-
6
-
-
0034644270
-
'The segment polarity network is a robust developmental module'
-
0028-0836
-
von Dassov, G., Meir, E., Munro, E.M., and Odell, M.O.: 'The segment polarity network is a robust developmental module', Nature, 2000, 406, p. 188-192 0028-0836
-
(2000)
Nature
, vol.406
, pp. 188-192
-
-
von Dassov, G.1
Meir, E.2
Munro, E.M.3
Odell, M.O.4
-
7
-
-
33750533388
-
'Physicochemical modelling of cell signalling pathways'
-
Aldridge, B.B., Burke, J.M., Lauffenburger, D.A., and Sorger, P.K.: 'Physicochemical modelling of cell signalling pathways', Nat. Cell. Biol., 2006, 8, p. 1195-1203
-
(2006)
Nat. Cell. Biol.
, vol.8
, pp. 1195-1203
-
-
Aldridge, B.B.1
Burke, J.M.2
Lauffenburger, D.A.3
Sorger, P.K.4
-
8
-
-
13444278821
-
'Reconstruction of cellular signalling networks and analysis of their properties'
-
Papin, J.A., Hunter, T., Palsson, B.O., and Subramaniam, S.: 'Reconstruction of cellular signalling networks and analysis of their properties', Nat. Rev. Mol. Cell. Biol., 2005, 6, p. 99-111
-
(2005)
Nat. Rev. Mol. Cell. Biol.
, vol.6
, pp. 99-111
-
-
Papin, J.A.1
Hunter, T.2
Palsson, B.O.3
Subramaniam, S.4
-
9
-
-
0034688174
-
'Construction of a genetic toggle switch in Escherichia coli.'
-
0028-0836
-
Gardner, T.S., Cantor, C.R., and Collins, J.J.: 'Construction of a genetic toggle switch in Escherichia coli.', Nature,, 403, p. 339-342 0028-0836
-
Nature
, vol.403
, pp. 339-342
-
-
Gardner, T.S.1
Cantor, C.R.2
Collins, J.J.3
-
10
-
-
0034688173
-
'A synthetic oscillatory network of transcriptional regulators'
-
0028-0836
-
Elowitz, M.B., and Leibler, S.: 'A synthetic oscillatory network of transcriptional regulators', Nature, 2000, 403, p. 335-338 0028-0836
-
(2000)
Nature
, vol.403
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
11
-
-
20544474049
-
'Toward predictive models of mammalian cells'
-
Ma'ayan, A., Blitzer, R.D., and Iyengar, R.: 'Toward predictive models of mammalian cells', Annu. Rev. Biophys. Biomol. Struct., 2005, 34, p. 319-349
-
(2005)
Annu. Rev. Biophys. Biomol. Struct.
, vol.34
, pp. 319-349
-
-
Ma'ayan, A.1
Blitzer, R.D.2
Iyengar, R.3
-
12
-
-
0035826155
-
'Exploring complex networks'
-
0028-0836
-
Strogatz, S.H.: 'Exploring complex networks', Nature, 2001, 410, p. 268-276 0028-0836
-
(2001)
Nature
, vol.410
, pp. 268-276
-
-
Strogatz, S.H.1
-
13
-
-
0033518234
-
'From molecular to modular cell biology'
-
0028-0836
-
Hartwell, L.H., Hopfield, J.J., Leibler, S., and Murray, A.W.: 'From molecular to modular cell biology', Nature, 1999, 402, p. c47-c52 0028-0836
-
(1999)
Nature
, vol.402
-
-
Hartwell, L.H.1
Hopfield, J.J.2
Leibler, S.3
Murray, A.W.4
-
14
-
-
0037376655
-
'Sniffers, buffers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell'
-
Tyson, J.J., Chen, J.C., and Novak, B.: 'Sniffers, buffers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell', Curr. Opin. Cell. Biol., 2003, 15, p. 221-231
-
(2003)
Curr. Opin. Cell. Biol.
, vol.15
, pp. 221-231
-
-
Tyson, J.J.1
Chen, J.C.2
Novak, B.3
-
15
-
-
0037686112
-
'The topology of the regulatory interactions predicts the expression pattern of the drosophila segment polarity genes'
-
Albert, R., and Othmer, H.G.: 'The topology of the regulatory interactions predicts the expression pattern of the drosophila segment polarity genes', J. Theor. Biol., 2003, 223, p. 1-18
-
(2003)
J. Theor. Biol.
, vol.223
, pp. 1-18
-
-
Albert, R.1
Othmer, H.G.2
-
16
-
-
0037136555
-
'Robustness of the BMP morphogen gradient in Drosophila embryonic patterning'
-
0028-0836
-
Eldar, A., Dorfman, R., Weiss, D., Ashe, H., Shilo, B., and Barkai, N.: 'Robustness of the BMP morphogen gradient in Drosophila embryonic patterning', Nature, 2002, 419, p. 304-308 0028-0836
-
(2002)
Nature
, vol.419
, pp. 304-308
-
-
Eldar, A.1
Dorfman, R.2
Weiss, D.3
Ashe, H.4
Shilo, B.5
Barkai, N.6
-
17
-
-
1242274449
-
'Detection of multistability, bifurcations, and hysteresis in a large class of biological positive-feedback systems'
-
0027-8424
-
Angeli, D., Ferrell, J.E., and Sontag, E.D.: 'Detection of multistability, bifurcations, and hysteresis in a large class of biological positive-feedback systems', Proc. Natl. Acad. Sci. USA, 2004, 101, p. 1822-1827 0027-8424
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 1822-1827
-
-
Angeli, D.1
Ferrell, J.E.2
Sontag, E.D.3
-
18
-
-
33751394517
-
'Time scale and dimension analysis of a budding yeast cell cycle model'
-
Lovrics, A., Csikász-Nagy, A., Zsély, I., Zádor, J., Turányi, T., and Novák, B.: 'Time scale and dimension analysis of a budding yeast cell cycle model', BMC Bioinformatics, 2006, 7, p. 494-505
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 494-505
-
-
Lovrics, A.1
Csikász-Nagy, A.2
Zsély, I.3
Zádor, J.4
Turányi, T.5
Novák, B.6
-
19
-
-
32544450571
-
'Linear systems approach to analysis of complex dynamic behaviours in biochemical networks'
-
1741-2471
-
Schmidt, H., and Jacobsen, E.W.: 'Linear systems approach to analysis of complex dynamic behaviours in biochemical networks', IEE Syst. Biol., 2004, 1, p. 149-158 1741-2471
-
(2004)
IEE Syst. Biol.
, vol.1
, pp. 149-158
-
-
Schmidt, H.1
Jacobsen, E.W.2
-
20
-
-
0043180477
-
'Oscillatory expression of Hes1, p53, and NF-κB driven by transcriptional time delays'
-
Monk, N.A.M.: 'Oscillatory expression of Hes1, p53, and NF-κB driven by transcriptional time delays', Curr. Biol., 2003, 3, p. 1409-1413
-
(2003)
Curr. Biol.
, vol.3
, pp. 1409-1413
-
-
Monk, N.A.M.1
-
21
-
-
0041677612
-
'Autoinhibition with transcriptional delay: A simple mechanism for the zebrafish somitogeneses oscillator'
-
Lewis, J.: 'Autoinhibition with transcAiptional delay: a simple mechanism for the zebrafish somitogeneses oscillator', Curr. Biol., 2003, 13, p. 1398-1408
-
(2003)
Curr. Biol.
, vol.13
, pp. 1398-1408
-
-
Lewis, J.1
-
22
-
-
26844581913
-
'Delay induced stochastic oscillations in gene regulation'
-
0027-8424
-
Bratsun, D., Volfson, D., Tsimring, L.S., and Hasty, J.: 'Delay induced stochastic oscillations in gene regulation', Proc. Natl. Acad. Sci. USA, 2005, 102, p. 14593-14598 0027-8424
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 14593-14598
-
-
Bratsun, D.1
Volfson, D.2
Tsimring, L.S.3
Hasty, J.4
-
23
-
-
0035579883
-
'Mathematical model of the cell division cycle of fission yeast'
-
1054-1500
-
Novak, B., Pataki, Z., Ciliberto, A., and Tyson, J.J.: 'Mathematical model of the cell division cycle of fission yeast', Chaos, 2001, 11, p. 277-286 1054-1500
-
(2001)
Chaos
, vol.11
, pp. 277-286
-
-
Novak, B.1
Pataki, Z.2
Ciliberto, A.3
Tyson, J.J.4
-
24
-
-
0035656416
-
'Network dynamics and cell physiology'
-
Tyson, J.J., Chen, A.K., and Novak, B.: 'Network dynamics and cell physiology', Nat. Rev. Mol. Cell. Biol., 2001, 2, p. 908-916
-
(2001)
Nat. Rev. Mol. Cell. Biol.
, vol.2
, pp. 908-916
-
-
Tyson, J.J.1
Chen, A.K.2
Novak, B.3
-
25
-
-
14344263687
-
'Modeling complex cellular networks - Robust switching in the cell cycle ensures a piecewise linear reduction of the regulatory network'
-
Eriksson, O., Zhou, Y., and Tegner, J.: 'Modeling complex cellular networks - robust switching in the cell cycle ensures a piecewise linear reduction of the regulatory network', CDC 2004: IEEE Conf. Decision and Control, 2004, 1, p. 117-123
-
(2004)
CDC 2004: IEEE Conf. Decision and Control
, vol.1
, pp. 117-123
-
-
Eriksson, O.1
Zhou, Y.2
Tegner, J.3
-
26
-
-
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., 1973, 39, p. 103-129
-
(1973)
J. Theor. Biol.
, vol.39
, pp. 103-129
-
-
Glass, L.1
Kauffman, S.A.2
-
27
-
-
0016758861
-
'Classification of biological networks by their qualitative dynamics'
-
Glass, L.: 'Classification of biological networks by their qualitative dynamics', J. Theor. Biol., 1975, 54, p. 85-107
-
(1975)
J. Theor. Biol.
, vol.54
, pp. 85-107
-
-
Glass, L.1
-
28
-
-
0001755071
-
'AUTO, a program for the automatic bifurcation analysis of autonomous systems'
-
Doedel, E.J.: 'AUTO, a program for the automatic bifurcation analysis of autonomous systems', Congr. Numer., 1981, 30, p. 265-384
-
(1981)
Congr. Numer.
, vol.30
, pp. 265-384
-
-
Doedel, E.J.1
-
29
-
-
32544443964
-
'Systems biology toolbox for MATLAB: A computational platform for research in systems biology'
-
Schmidt, H., and Jirstrand, M.:A'Systems biology toolbox for MATLAB: a computational platform for research in systems biology', Bioinformatics, 2006, 22, p. 514-515
-
(2006)
Bioinformatics
, vol.22
, pp. 514-515
-
-
Schmidt, H.1
Jirstrand, M.2
-
31
-
-
0036905483
-
'The dynamics of cell cycle regulation'
-
Tyson, J.J., Csikasz-Nagy, A., and Novak, B.: 'The dynamics of cell cycle regulation', BioEssays, 2002, 24, p. 1095-1109
-
(2002)
BioEssays
, vol.24
, pp. 1095-1109
-
-
Tyson, J.J.1
Csikasz-Nagy, A.2
Novak, B.3
-
32
-
-
0034608810
-
'Modeling the fission yeast cell cycle: Quantized cycle times in wee 1 - cdc 25Δ mutant cells'
-
0027-8424
-
Sveiczer, A., Csikasz-Nagy, A., Gyorffy, B., Tyson, J., and Novak, B.: 'Modeling the fission yeast cell cycle: Quantized cycle times in wee 1 - cdc 25Δ mutant cells', Proc. Natl. Acad. Sci. USA, 2000, 97, p. 7865-7870 0027-8424
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 7865-7870
-
-
Sveiczer, A.1
Csikasz-Nagy, A.2
Gyorffy, B.3
Tyson, J.4
Novak, B.5
-
33
-
-
33745809191
-
'A simple time delay model for eukaryotic cell cycle'
-
Srividhya, J., and Gopinathan, M.S.: 'A simple time delay model for eukaryotic cell cycle', J. Theor. Biol., 2006, 241, p. 617-627
-
(2006)
J. Theor. Biol.
, vol.241
, pp. 617-627
-
-
Srividhya, J.1
Gopinathan, M.S.2
-
34
-
-
84986760771
-
'The steady-state approximation: Fact or fiction?'
-
Farrow, L.A., and Edelson, F.: 'The steady-state approximation: fact or fiction?', Int. J. Chem. Kinet., 1974, 6, p. 787-800
-
(1974)
Int. J. Chem. Kinet.
, vol.6
, pp. 787-800
-
-
Farrow, L.A.1
Edelson, D.2
-
35
-
-
0023734558
-
'On the validity of the steady state assumption of enzyme kinetics'
-
0092-8240
-
Segel, L.A.: 'On the validity of the steady state assumption of enzyme kinetics', Bull. Math. Biol., 1988, 50, p. 579-593 0092-8240
-
(1988)
Bull. Math. Biol.
, vol.50
, pp. 579-593
-
-
Segel, L.A.1
-
36
-
-
33746626536
-
'Use and abuse of the quasi-steady-state approximation'
-
Flach, E.H., and Schnell, S.: 'Use and abuse of the quasi-steady-state approximation', Syst. Biol. (Stevenage), 2006, 153, p. 187-191
-
(2006)
Syst. Biol. (Stevenage)
, vol.153
, pp. 187-191
-
-
Flach, E.H.1
Schnell, S.2
-
37
-
-
1242333310
-
'Qualitative simulation of genetic regulatory networks using piecewise-linear models'
-
0092-8240
-
De Jong, H., Gouzé, J., Hernandez, C., Page, M., Sari, T., and Geiselmann, J.: 'Qualitative simulation of genetic regulatory networks using piecewise-linear models', Bull. Math. Biol., 2004, 66, p. 301-340 0092-8240
-
(2004)
Bull. Math. Biol.
, vol.66
, pp. 301-340
-
-
De Jong, H.1
Gouzé, J.2
Hernandez, C.3
Page, M.4
Sari, T.5
Geiselmann, J.6
-
38
-
-
0032020122
-
'A methodological basis for description and analysis of systems with complex switch-like interactions'
-
0303-6812
-
Plahte, E., Mestl, T., and Omholt, S.W.: 'A methodological basis for description and analysis of systems with complex switch-like interactions', J. Math. Biol., 1998, 36, p. 321-348 0303-6812
-
(1998)
J. Math. Biol.
, vol.36
, pp. 321-348
-
-
Plahte, E.1
Mestl, T.2
Omholt, S.W.3
-
39
-
-
0001424903
-
'An amplified sensitivity arising from covalent modification in biological systems'
-
0027-8424
-
Goldbeter, A., and Koshland, D.J.: 'An amplified sensitivity arising from covalent modification in biological systems', Proc. Natl. Acad. Sci. USA, 1981, 11, p. 6840-6844 0027-8424
-
(1981)
Proc. Natl. Acad. Sci. USA
, vol.11
, pp. 6840-6844
-
-
Goldbeter, A.1
Koshland, D.J.2
-
40
-
-
0029790351
-
'Ultrasensitivity in the mitogen-activated protein kinase cascade'
-
0027-8424
-
Huang, C.Y., and Ferrell, J.E.J.: 'Ultrasensitivity in the mitogen-activated protein kinase cascade', Proc. Natl. Acad. Sci. USA, 1996, 93, p. 10078-10083 0027-8424
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 10078-10083
-
-
Huang, C.Y.1
Ferrell, J.E.J.2
-
41
-
-
0036498527
-
'A phosphorylation-driven ubiquitination switch for cell-cycle control'
-
Harper, J.W.: 'A phosphorylation-driven ubiquitination switch for cell-cycle control', Trends Cell Biol., 2002, 12, p. 104-107
-
(2002)
Trends Cell Biol
, vol.12
, pp. 104-107
-
-
Harper, J.W.1
-
42
-
-
0033560109
-
'A MP-activated protein kinase: An ultrasensitive system for monitoring cellular energy charge'
-
Hardie, D.G., Salt, I.P., Hawley, S.A., and Davies, S.P.: 'A MP-activated protein kinase: An ultrasensitive system for monitoring cellular energy charge', Biochem. J., 1999, 338, p. 717-722
-
(1999)
Biochem. J.
, vol.338
, pp. 717-722
-
-
Hardie, D.G.1
Salt, I.P.2
Hawley, S.A.3
Davies, S.P.4
-
43
-
-
0242515913
-
'The JNK cascade as a biochemical switch in mammalian cells: Ultrasensitive and all-or-none responses'
-
Bagowski, C.P., Besser, J., Frey, C.R., and Ferrell, J.E.J.: 'The JNK cascade as a biochemical switch in mammalian cells: Ultrasensitive and all-or-none responses', Curr. Biol., 2003, 13, p. 315-320
-
(2003)
Curr. Biol.
, vol.13
, pp. 315-320
-
-
Bagowski, C.P.1
Besser, J.2
Frey, C.R.3
Ferrell, J.E.J.4
-
44
-
-
0030445778
-
'Tripping the switch fantastic: How a protein kinase cascade can convert graded inputs into switch-like outputs'
-
Ferrell, J.E.J.: 'TrippingHthe switch fantastic: how a protein kinase cascade can convert graded inputs into switch-like outputs', Trends Biochem. Sci., 1996, 21, p. 460-466
-
(1996)
Trends Biochem. Sci.
, vol.21
, pp. 460-466
-
-
Ferrell, J.E.J.1
-
45
-
-
0022332422
-
'Excitation dynamics: Insights from simplified membrane models'
-
Rinzel, J.: 'ExcItation dynamics: insights from simplified membrane models', Fed. Proc., 1985, 44, p. 2944-2946
-
(1985)
Fed. Proc.
, vol.44
, pp. 2944-2946
-
-
Rinzel, J.1
-
46
-
-
0032304638
-
'Networks of neurons as dynamical systems: From geometry to biophysics'
-
0033-569X
-
Kopell, N.: 'Networks of neurons as dFnamical systems: from geometry to biophysics', Q. Appl. Math., 1998, 56, p. 707-718 0033-569X
-
(1998)
Q. Appl. Math.
, vol.56
, pp. 707-718
-
-
Kopell, N.1
-
47
-
-
0041730763
-
'Persistent activity and the single cell f-I curve in a cortical network model'
-
Brunel, N.: 'Persistent activity and the single cell f-I curve in a cortical network model', Network, 2000, 11, p. 261-280
-
(2000)
Network
, vol.11
, pp. 261-280
-
-
Brunel, N.1
-
48
-
-
0035826148
-
'Synchronization and rhythmic processes in physiology'
-
0028-0836
-
Glass, L.: 'Synchronization and rhythmic processes in physiology', Nature, 2001, 410, p. 277-284 0028-0836
-
(2001)
Nature
, vol.410
, pp. 277-284
-
-
Glass, L.1
-
49
-
-
0017714604
-
'Oscillation and chaos in physiological control systems'
-
0036-8075
-
Mackey, M.C., and Glass, L.: 'Oscillation and chaos in physiological control systems', Science, 1977, 197, p. 287-289 0036-8075
-
(1977)
Science
, vol.197
, pp. 287-289
-
-
Mackey, M.C.1
Glass, L.2
-
50
-
-
55549143637
-
'The transition from different equations to Boolean networks: A case study in simplifying a regulatory network model'
-
Davidich, M., and Bornholdt, S.: 'The transition from different equations to Boolean networks: A case study in simplifying a regulatory network model', J. Theor. Biol., 2008, 255, (3), p. 269-277
-
(2008)
J. Theor. Biol.
, vol.255
, Issue.3
, pp. 269-277
-
-
Davidich, M.1
Bornholdt, S.2
-
51
-
-
33750040836
-
'Reduction of a biochemical model with preservation of its basic dynamic properties'
-
Danø, S., Madsen, M., Schmidt, H., and Cedersund, G.: 'Reduction of a biochemical model with preservation of its basic dynamic properties', FEBS J., 2006, 273, p. 4862-4877
-
(2006)
FEBS J.
, vol.273
, pp. 4862-4877
-
-
Danø, S.1
Madsen, M.2
Schmidt, H.3
Cedersund, G.4
|