-
1
-
-
0029790351
-
Ultrasensitivity in the mitogen-activated protein kinase cascade
-
Huang C Y and Ferrell J E 1996 Ultrasensitivity in the mitogen-activated protein kinase cascade Proc. Natl Acad. Sci. USA 93 10078-83
-
(1996)
Proc. Natl Acad. Sci. USA
, vol.93
, Issue.19
, pp. 10078-10083
-
-
Huang, C.Y.1
Ferrell, J.E.2
-
2
-
-
24344446438
-
The PTEN/PI3K pathway governs normal vascular development and tumor angiogenesis
-
DOI 10.1101/gad.1308805
-
Hamada K et al 2005 The PTEN/PI3K pathway governs normal vascular development and tumor angiogenesis Genes Dev. 19 2054-65 (Pubitemid 41247962)
-
(2005)
Genes and Development
, vol.19
, Issue.17
, pp. 2054-2065
-
-
Hamada, K.1
Sasaki, T.2
Koni, P.A.3
Natsui, M.4
Kishimoto, H.5
Sasaki, J.6
Yajima, N.7
Horie, Y.8
Hasegawa, G.9
Naito, M.10
Miyazaki, J.-I.11
Suda, T.12
Itoh, H.13
Nakao, K.14
Tak, W.M.15
Nakano, T.16
Suzuki, A.17
-
3
-
-
0036007421
-
Regulation of cell size in growth, development and human disease: PI3K, PKB and S6K
-
DOI 10.1002/bies.10031
-
Kozma S C and Thomas G 2002 Regulation of cell size in growth, development and human disease: PI3K, PKB and S6K Bioessays 24 65-71 (Pubitemid 34108421)
-
(2002)
BioEssays
, vol.24
, Issue.1
, pp. 65-71
-
-
Kozma, S.C.1
Thomas, G.2
-
4
-
-
0036285634
-
Mathematical models of protein kinase signal transduction
-
DOI 10.1016/S1097-2765(02)00528-2
-
Heinrich R, Neel B G and Rapoport T A 2002 Mathematical models of protein kinase signal transduction Mol. Cell 9 957-70 (Pubitemid 34626667)
-
(2002)
Molecular Cell
, vol.9
, Issue.5
, pp. 957-970
-
-
Heinrich, R.1
Neel, B.G.2
Rapoport, T.A.3
-
5
-
-
18244390270
-
Interrelations between dynamical properties and structural characteristics of signal transduction networks
-
Binder B and Heinrich R 2004 Interrelations between dynamical properties and structural characteristics of signal transduction networks Genome Inform. 15 13-23
-
(2004)
Genome Inform.
, vol.15
, pp. 13-23
-
-
Binder, B.1
Heinrich, R.2
-
6
-
-
6344223567
-
Optimal length and signal amplification in weakly activated signal transduction cascades
-
Chaves M, Sontag E D and Dinerstein R J 2004 Optimal length and signal amplification in weakly activated signal transduction cascades J. Phys. Chem. B 108 15311-20
-
(2004)
J. Phys. Chem.
, vol.108
, Issue.39
, pp. 15311-15320
-
-
Chaves, M.1
Sontag, E.D.2
Dinerstein, R.J.3
-
7
-
-
21044435948
-
A systems- and signal-oriented approach to intracellular dynamics
-
DOI 10.1042/BST0330507
-
Wolkenhauer O, Sreenath S, Wellstead P, Ullah M and Cho K 2005 A systems-and signal-oriented approach to intracellular dynamics Biochem. Soc. Trans. 33 507-15 (Pubitemid 40873877)
-
(2005)
Biochemical Society Transactions
, vol.33
, Issue.3
, pp. 507-515
-
-
Wolkenhauer, O.1
Sreenath, S.N.2
Wellstead, P.3
Ullah, M.4
Cho, K.-H.5
-
8
-
-
32044463378
-
Kinetic models of phosphorylation cycles: A systematic approach using the rapid-equilibrium approximation for protein-protein interactions
-
DOI 10.1016/j.biosystems.2005.05.015, PII S0303264705001280
-
Salazar C and Höfer T 2006 Kinetic models of phosphorylation cycles: a systematic approach using the rapid-equilibrium approximation for protein-protein interactions Biosystems 83 195-206 (Pubitemid 43199820)
-
(2006)
BioSystems
, vol.83
, Issue.2-3 SPEC. ISS.
, pp. 195-206
-
-
Salazar, C.1
Hofer, T.2
-
10
-
-
64149132189
-
The effects of cascade length, kinetics and feedback loops on biological signal transduction dynamics in a simplified cascade model
-
Qu Z and Vondriska T M 2009 The effects of cascade length, kinetics and feedback loops on biological signal transduction dynamics in a simplified cascade model Phys. Biol. 6 016007
-
(2009)
Phys. Biol.
, vol.6
, Issue.1
, pp. 016007
-
-
Qu, Z.1
Vondriska, T.M.2
-
13
-
-
0035579883
-
Mathematical model of the cell division cycle of fission yeast
-
Novak B, Pataki Z, Ciliberto A and Tyson J J 2001 Mathematical model of the cell division cycle of fission yeast Chaos 11 277-86
-
(2001)
Chaos
, vol.11
, Issue.1
, pp. 277-286
-
-
Novak, B.1
Pataki, Z.2
Ciliberto, A.3
Tyson, J.J.4
-
14
-
-
0027451906
-
Modeling the cell division cycle: M-phase trigger, oscillations and size control
-
Novak B and Tyson J J 1993 Modeling the cell division cycle: M-phase trigger, oscillations and size control J. Theor. Biol. 165 101-34
-
(1993)
J. Theor. Biol.
, vol.165
, Issue.1
, pp. 101-134
-
-
Novak, B.1
Tyson, J.J.2
-
15
-
-
33846299933
-
Investigation of a cellular pharmacodynamic model exhibiting sharp response sensitivity and tolerance
-
DOI 10.1007/s10928-006-9042-0
-
Siegel R A 2007 Investigation of a cellular pharmacodynamic model exhibiting sharp response sensitivity and tolerance J. Pharmacokinet. Pharmacodyn. 34 87-101 (Pubitemid 46122549)
-
(2007)
Journal of Pharmacokinetics and Pharmacodynamics
, vol.34
, Issue.1
, pp. 87-101
-
-
Siegel, R.A.1
-
16
-
-
0031835741
-
Transit compartments versus gamma distribution function to model signal transduction processes in pharmacodynamics
-
DOI 10.1021/js970414z
-
Sun Y N and Jusko W J 1998 Transit compartments versus gamma distribution function to model signal transduction processes in pharmacodynamics J. Pharm. Sci. 87 732-7 (Pubitemid 28268573)
-
(1998)
Journal of Pharmaceutical Sciences
, vol.87
, Issue.6
, pp. 732-737
-
-
Sun, Y.-N.1
Jusko, W.J.2
-
17
-
-
1242274449
-
Detection of multistability, bifurcations, and hysteresis in a large class of biological positive-feedback systems
-
DOI 10.1073/pnas.0308265100
-
Angeli D, Ferrell J E and Sontag E D 2004 Detection of multistability, bifurcations, and hysteresis in a large class of biological positive-feedback systems Proc. Natl Acad. Sci. USA 101 1822-7 (Pubitemid 38228975)
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, Issue.7
, pp. 1822-1827
-
-
Angeli, D.1
Ferrell Jr., J.E.2
Sontag, E.D.3
-
19
-
-
0034019315
-
Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activated protein kinase cascades
-
DOI 10.1046/j.1432-1327.2000.01197.x
-
Kholodenko B N 2000 Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activated protein kinase cascades FEBS J. 267 1583-8 (Pubitemid 30165509)
-
(2000)
European Journal of Biochemistry
, vol.267
, Issue.6
, pp. 1583-1588
-
-
Kholodenko, B.N.1
-
20
-
-
33947614062
-
Modeling the septation initiation network (SIN) in fission yeast cells
-
DOI 10.1007/s00294-007-0123-4
-
Csiksz-Nagy A, Kapuy O, Gyrffy B, Tyson J J and Novak B 2007 Modeling the septation initiation network (SIN) in fission yeast cells Curr. Gen. 51 245-55 (Pubitemid 46488045)
-
(2007)
Current Genetics
, vol.51
, Issue.4
, pp. 245-255
-
-
Csikasz-Nagy, A.1
Kapuy, O.2
Gyorffy, B.3
Tyson, J.J.4
Novak, B.5
-
22
-
-
0842288229
-
Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades
-
DOI 10.1083/jcb.200308060
-
Markevich N I, Hoek J B and Kholodenko B N 2004 Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades J. Cell Biol. 164 353-9 (Pubitemid 38174763)
-
(2004)
Journal of Cell Biology
, vol.164
, Issue.3
, pp. 353-359
-
-
Markevich, N.I.1
Hoek, J.B.2
Kholodenko, B.N.3
-
23
-
-
49549102185
-
Uncovering mechanisms of bistability in biological systems
-
Pomerening J R 2008 Uncovering mechanisms of bistability in biological systems Curr. Opin. Biotechnol. 19 381-8
-
(2008)
Curr. Opin. Biotechnol.
, vol.19
, Issue.4
, pp. 381-388
-
-
Pomerening, J.R.1
-
24
-
-
0015526205
-
Chemotaxis in Escherichia coli analysed by three-dimensional tracking
-
Berg H C and Brown D A 1972 Chemotaxis in Escherichia coli analysed by three-dimensional tracking Nature 239 500-4
-
(1972)
Nature
, vol.239
, Issue.5374
, pp. 500-504
-
-
Berg, H.C.1
Brown, D.A.2
-
25
-
-
0036282743
-
Osmotic stress signaling and osmoadaptation in yeasts
-
DOI 10.1128/MMBR.66.2.300-372.2002
-
Hohmann S 2002 Osmotic stress signaling and osmoadaptation in yeasts Microbiol. Mol. Biol. Rev. 66 300-72 (Pubitemid 34625712)
-
(2002)
Microbiology and Molecular Biology Reviews
, vol.66
, Issue.2
, pp. 300-372
-
-
Hohmann, S.1
-
26
-
-
0042379580
-
Calcium, the two-faced messenger of olfactory transduction and adaptation
-
DOI 10.1016/S0959-4388(03)00097-7
-
Matthews H R and Reisert J 2003 Calcium, the two-faced messenger of olfactory transduction and adaptation Curr. Opin. Neurobiol. 13 469-75 (Pubitemid 37088237)
-
(2003)
Current Opinion in Neurobiology
, vol.13
, Issue.4
, pp. 469-475
-
-
Matthews, H.R.1
Reisert, J.2
-
27
-
-
34047259513
-
A systems-biology analysis of feedback inhibition in the Sho1 osmotic-stress-response pathway
-
DOI 10.1016/j.cub.2007.02.044, PII S0960982207010214
-
Hao N et al 2007 A systems-biology analysis of feedback inhibition in the Sho1 osmotic-stress-response pathway Curr. Biol. 17 659-67 (Pubitemid 46552242)
-
(2007)
Current Biology
, vol.17
, Issue.8
, pp. 659-667
-
-
Hao, N.1
Behar, M.2
Parnell, S.C.3
Torres, M.P.4
Borchers, C.H.5
Elston, TimothyC.6
Dohlman, H.G.7
-
28
-
-
34547697290
-
Mathematical and computational analysis of adaptation via feedback inhibition in signal transduction pathways
-
DOI 10.1529/biophysj.107.107516
-
Behar M, Hao N, Dohlman H G and Elston T C 2007 Mathematical and computational analysis of adaptation via feedback inhibition in signal transduction pathways Biophys. J. 93 806-21 (Pubitemid 47219774)
-
(2007)
Biophysical Journal
, vol.93
, Issue.3
, pp. 806-821
-
-
Behar, M.1
Hao, N.2
Dohlman, H.G.3
Elstonz, T.C.4
-
29
-
-
68749118345
-
Defining network topologies that can achieve biochemical adaptation
-
Ma W, Trusina A, El-Samad H, Lim W A and Tang C 2009 Defining network topologies that can achieve biochemical adaptation Cell 138 760-73
-
(2009)
Cell
, vol.138
, Issue.4
, pp. 760-773
-
-
Ma, W.1
Trusina, A.2
El-Samad, H.3
Lim, W.A.4
Tang, C.5
-
30
-
-
0032485826
-
Mathematical model of the fission yeast cell cycle with checkpoint controls at the G1/S, G2/M and metaphase/anaphase transitions
-
DOI 10.1016/S0301-4622(98)00133-1, PII S0301462298001331
-
Novak B, Csikasz-Nagy A, Gyorffy B, Chen K and Tyson J J 1998 Mathematical model of the fission yeast cell cycle with checkpoint controls at the G1/S, G2/M and metaphase/anaphase transitions Biophys. Chem. 72 185-200 (Pubitemid 28267527)
-
(1998)
Biophysical Chemistry
, vol.72
, Issue.1-2
, pp. 185-200
-
-
Novak, B.1
Csikasz-Nagy, A.2
Gyorffy, B.3
Chen, K.4
Tyson, J.J.5
-
31
-
-
0035926434
-
A model for a network of phosphorylation-dephosphorylation cycles displaying the dynamics of dominoes and clocks
-
DOI 10.1006/jtbi.2000.2294
-
Gonze D and Goldbeter A 2000 A model for a network of phosphorylation-dephosphorylation cycles displaying the dynamics of dominoes and clocks J. Theor. Biol. 210 167-86 (Pubitemid 32575060)
-
(2001)
Journal of Theoretical Biology
, vol.210
, Issue.2
, pp. 167-186
-
-
Gonze, D.1
Goldbeter, A.2
-
32
-
-
77957120436
-
Goldbeter-Koshland model for open signaling cascades: A mathematical study
-
Li Y and Srividhya J 2010 Goldbeter-Koshland model for open signaling cascades: a mathematical study J. Math. Biol. 61 781-803
-
(2010)
J. Math. Biol.
, vol.61
, Issue.6
, pp. 781-803
-
-
Li, Y.1
Srividhya, J.2
-
33
-
-
0036532226
-
Self-perpetuating states in signal transduction: Positive feedback, double-negative feedback and bistability
-
Ferrell J E 2002 Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability Curr. Opin. Cell Biol. 14 140-8
-
(2002)
Curr. Opin. Cell Biol.
, vol.14
, Issue.2
, pp. 140-148
-
-
Ferrell, J.E.1
-
35
-
-
23244446113
-
Signal processing at the Ras circuit: What shapes Ras activation patterns?
-
Markevich N, Moehren G, Demin O, Kiyatkin A, Hoek J and Kholodenko B 2004 Signal processing at the Ras circuit: what shapes Ras activation patterns? Syst. Biol. 1 104-13
-
(2004)
Syst. Biol.
, vol.1
, Issue.1
, pp. 104-113
-
-
Markevich, N.1
Moehren, G.2
Demin, O.3
Kiyatkin, A.4
Hoek, J.5
Kholodenko, B.6
-
36
-
-
33644524741
-
Cell-signalling dynamics in time and space
-
Kholodenko B N 2006 Cell-signalling dynamics in time and space Nat. Rev. Mol. Cell Biol. 7 165-76
-
(2006)
Nat. Rev. Mol. Cell Biol.
, vol.7
, Issue.3
, pp. 165-176
-
-
Kholodenko, B.N.1
-
37
-
-
18944374155
-
Graded mitogen-activated protein kinase activity precedes switch-like c-Fos induction in mammalian cells
-
DOI 10.1128/MCB.25.11.4676-4682.2005
-
MacKeigan J P, Murphy L O, Dimitri C A and Blenis J 2005 Graded mitogen-activated protein kinase activity precedes switch-like c-Fos induction in mammalian cells Mol. Cell. Biol. 25 4676-82 (Pubitemid 40705770)
-
(2005)
Molecular and Cellular Biology
, vol.25
, Issue.11
, pp. 4676-4682
-
-
MacKeigan, J.P.1
Murphy, L.O.2
Dimitri, C.A.3
Blenis, J.4
-
38
-
-
0036219106
-
Models of eukaryotic gradient sensing: Application to chemotaxis of amoebae and neutrophils
-
Levchenko A and Iglesias P A 2002 Models of eukaryotic gradient sensing: application to chemotaxis of amoebae and neutrophils Biophys. J. 82 50-63 (Pubitemid 34289781)
-
(2002)
Biophysical Journal
, vol.82
, Issue.1
, pp. 50-63
-
-
Levchenko, A.1
Iglesias, P.A.2
-
39
-
-
32644440121
-
Positive feedback may cause the biphasic response observed in the chemoattractant-induced response of Dictyostelium cells
-
DOI 10.1016/j.sysconle.2005.08.009, PII S0167691105001416
-
Yang L and Iglesias P A 2006 Positive feedback may cause the biphasic response observed in the chemoattractant-induced response of Dictyostelium cells Syst. Control Lett. 55 329-37 (Pubitemid 43242962)
-
(2006)
Systems and Control Letters
, vol.55
, Issue.4
, pp. 329-337
-
-
Yang, L.1
Iglesias, P.A.2
-
40
-
-
48949119102
-
A case study of evolutionary computation of biochemical adaptation
-
François P and Siggia E D 2008 A case study of evolutionary computation of biochemical adaptation Phys. Biol. 5 026009
-
(2008)
Phys. Biol.
, vol.5
, Issue.2
, pp. 026009
-
-
François, P.1
Siggia, E.D.2
-
41
-
-
33644966561
-
Effects of sequestration on signal transduction cascades
-
Blüthgen N, Bruggeman F J, Legewie S, Herzel H, Westerhoff H V and Kholodenko B N 2006 Effects of sequestration on signal transduction cascades FEBS J. 273 895-906
-
(2006)
FEBS J.
, vol.273
, Issue.5
, pp. 895-906
-
-
Blüthgen, N.1
Bruggeman, F.J.2
Legewie, S.3
Herzel, H.4
Westerhoff, H.V.5
Kholodenko, B.N.6
-
42
-
-
33745829762
-
Effect of binding in cyclic phosphorylation-dephosphorylation process and in energy transformation
-
DOI 10.1002/jcp.20651, PII S0025556406000447
-
Sarkar A, Beard D and Franza B 2006 Effect of binding in cyclic phosphorylation-dephosphorylation process and in energy transformation Math. Biosci. 202 175-93 (Pubitemid 44037019)
-
(2006)
Mathematical Biosciences
, vol.202
, Issue.1
, pp. 175-193
-
-
Sarkar, A.1
Beard, D.A.2
Franza, B.R.3
-
43
-
-
34147183345
-
Approximations and their consequences for dynamic modelling of signal transduction pathways
-
DOI 10.1016/j.mbs.2006.08.012, PII S0025556406001453
-
Millat T, Bullinger E, Rohwer J and Wolkenhauer O 2007 Approximations and their consequences for dynamic modelling of signal transduction pathways Math. Biosci. 207 40-57 (Pubitemid 46560741)
-
(2007)
Mathematical Biosciences
, vol.207
, Issue.1
, pp. 40-57
-
-
Millat, T.1
Bullinger, E.2
Rohwer, J.3
Wolkenhauer, O.4
-
44
-
-
0031559933
-
Quantification of information transfer via cellular signal transduction pathways
-
DOI 10.1016/S0014-5793(97)01018-1, PII S0014579397010181
-
Kholodenko B N, Hoek J B, Westerhoff H V and Brown G C 1997 Quantification of information transfer via cellular signal transduction pathways FEBS Lett. 414 430-4 (Pubitemid 27389410)
-
(1997)
FEBS Letters
, vol.414
, Issue.2
, pp. 430-434
-
-
Kholodenko, B.N.1
Hoek, J.B.2
Westerhoff, H.V.3
Brown, G.C.4
|