-
1
-
-
27744486991
-
Current challenges in quantitative modeling of epidermal growth factor signaling
-
10.1016/j.febslet.2005.10.034, 16288752
-
Breitling R, Hoeller D. Current challenges in quantitative modeling of epidermal growth factor signaling. FEBS Lett 2005, 579:6289-6294. 10.1016/j.febslet.2005.10.034, 16288752.
-
(2005)
FEBS Lett
, vol.579
, pp. 6289-6294
-
-
Breitling, R.1
Hoeller, D.2
-
2
-
-
33644524741
-
Cell-signalling dynamics in time and space
-
10.1038/nrm1838, 1679905, 16482094
-
Kholodenko BN. Cell-signalling dynamics in time and space. Nat Rev Mol Cell Biol 2006, 7:165-176. 10.1038/nrm1838, 1679905, 16482094.
-
(2006)
Nat Rev Mol Cell Biol
, vol.7
, pp. 165-176
-
-
Kholodenko, B.N.1
-
3
-
-
33747366698
-
Rules for modeling signal-transduction systems
-
10.1126/stke.3442006re6, 16849649
-
Hlavacek WS, Faeder JR, Blinov ML, Posner RG, Hucka M, Fontana W. Rules for modeling signal-transduction systems. Sci STKE 2006, 2006:re6. 10.1126/stke.3442006re6, 16849649.
-
(2006)
Sci STKE
, vol.2006
-
-
Hlavacek, W.S.1
Faeder, J.R.2
Blinov, M.L.3
Posner, R.G.4
Hucka, M.5
Fontana, W.6
-
4
-
-
0035905782
-
Modelling cellular behaviour
-
Endy D, Brent R. Modelling cellular behaviour. Nature 2001, 437:391-395.
-
(2001)
Nature
, vol.437
, pp. 391-395
-
-
Endy, D.1
Brent, R.2
-
5
-
-
0346502078
-
The complexity of complexes in signal transduction
-
10.1002/bit.10842, 14708119
-
Hlavacek WS, Faeder JR, Blinov ML, Perelson AS, Goldstein B. The complexity of complexes in signal transduction. Biotechnol Bioeng 2003, 84:783-794. 10.1002/bit.10842, 14708119.
-
(2003)
Biotechnol Bioeng
, vol.84
, pp. 783-794
-
-
Hlavacek, W.S.1
Faeder, J.R.2
Blinov, M.L.3
Perelson, A.S.4
Goldstein, B.5
-
6
-
-
70350364712
-
Molecular machines or pleiomorphic ensembles: signaling complexes revisited
-
10.1186/jbiol185, 2776906, 19835637
-
Mayer BJ, Blinov ML, Loew LM. Molecular machines or pleiomorphic ensembles: signaling complexes revisited. J Biol 2009, 8:81. 10.1186/jbiol185, 2776906, 19835637.
-
(2009)
J Biol
, vol.8
, pp. 81
-
-
Mayer, B.J.1
Blinov, M.L.2
Loew, L.M.3
-
7
-
-
14844361808
-
Multisite protein modification and intramolecular signaling
-
10.1038/sj.onc.1208173, 15744326
-
Yang XJ. Multisite protein modification and intramolecular signaling. Oncogene 2005, 24:1653-1662. 10.1038/sj.onc.1208173, 15744326.
-
(2005)
Oncogene
, vol.24
, pp. 1653-1662
-
-
Yang, X.J.1
-
8
-
-
66249102308
-
Multisite protein phosphorylation--from molecular mechanisms to kinetic models
-
10.1111/j.1742-4658.2009.07027.x, 19438722
-
Salazar C, Höfer T. Multisite protein phosphorylation--from molecular mechanisms to kinetic models. FEBS J 2009, 276:3177-3198. 10.1111/j.1742-4658.2009.07027.x, 19438722.
-
(2009)
FEBS J
, vol.276
, pp. 3177-3198
-
-
Salazar, C.1
Höfer, T.2
-
9
-
-
67650360968
-
Unlimited multistability in multisite phosphorylation systems
-
10.1038/nature08102, 2859978, 19536158
-
Thomson M, Gunawardena J. Unlimited multistability in multisite phosphorylation systems. Nature 2009, 460:274-277. 10.1038/nature08102, 2859978, 19536158.
-
(2009)
Nature
, vol.460
, pp. 274-277
-
-
Thomson, M.1
Gunawardena, J.2
-
10
-
-
67649383566
-
Aggregation of membrane proteins by cytosolic cross-linkers: theory and simulation of the LAT-Grb2-SOS1 system
-
10.1016/j.bpj.2009.01.019, 2711295, 19348745
-
Nag A, Monine MI, Faeder JR, Goldstein B. Aggregation of membrane proteins by cytosolic cross-linkers: theory and simulation of the LAT-Grb2-SOS1 system. Biophys J 2009, 96:2604-2623. 10.1016/j.bpj.2009.01.019, 2711295, 19348745.
-
(2009)
Biophys J
, vol.96
, pp. 2604-2623
-
-
Nag, A.1
Monine, M.I.2
Faeder, J.R.3
Goldstein, B.4
-
11
-
-
60549087904
-
Multivalency-assisted control of intracellular signaling pathways: application for ubiquitin-dependent N-end rule pathway
-
10.1016/j.chembiol.2009.01.012, 2665046, 19246002
-
Sriram SM, Banerjee R, Kane RS, Kwon YT. Multivalency-assisted control of intracellular signaling pathways: application for ubiquitin-dependent N-end rule pathway. Chem Biol 2009, 16:121-131. 10.1016/j.chembiol.2009.01.012, 2665046, 19246002.
-
(2009)
Chem Biol
, vol.16
, pp. 121-131
-
-
Sriram, S.M.1
Banerjee, R.2
Kane, R.S.3
Kwon, Y.T.4
-
12
-
-
0037453510
-
Assembly of cell regulatory systems through protein interaction domains
-
10.1126/science.1083653, 12702867
-
Pawson T, Nash P. Assembly of cell regulatory systems through protein interaction domains. Science 2003, 300:445-452. 10.1126/science.1083653, 12702867.
-
(2003)
Science
, vol.300
, pp. 445-452
-
-
Pawson, T.1
Nash, P.2
-
13
-
-
0026484261
-
SH2 and SH3 domains: from structure to function
-
10.1016/0092-8674(92)90504-6, 1423600
-
Pawson T, Gish GD. SH2 and SH3 domains: from structure to function. Cell 1992, 71:359-362. 10.1016/0092-8674(92)90504-6, 1423600.
-
(1992)
Cell
, vol.71
, pp. 359-362
-
-
Pawson, T.1
Gish, G.D.2
-
14
-
-
42649119825
-
The SH3 domain--a family of versatile peptide-and protein-recognition module
-
10.2741/3053, 18508559
-
Kaneko T, Li L, Li SS. The SH3 domain--a family of versatile peptide-and protein-recognition module. Front Biosci 2008, 13:4938-4952. 10.2741/3053, 18508559.
-
(2008)
Front Biosci
, vol.13
, pp. 4938-4952
-
-
Kaneko, T.1
Li, L.2
Li, S.S.3
-
15
-
-
70649096122
-
SH2 domains: modulators of nonreceptor tyrosine kinase activity
-
10.1016/j.sbi.2009.10.001, 2791838, 19926274
-
Filippakopoulos P, Müller S, Knapp S. SH2 domains: modulators of nonreceptor tyrosine kinase activity. Curr Opin Struct Biol 2009, 19:643-649. 10.1016/j.sbi.2009.10.001, 2791838, 19926274.
-
(2009)
Curr Opin Struct Biol
, vol.19
, pp. 643-649
-
-
Filippakopoulos, P.1
Müller, S.2
Knapp, S.3
-
17
-
-
63749113783
-
Tyrosine phosphorylation: thirty years and counting
-
10.1016/j.ceb.2009.01.028, 2670436, 19269802
-
Hunter T. Tyrosine phosphorylation: thirty years and counting. Curr Opin Cell Biol 2009, 21:140-146. 10.1016/j.ceb.2009.01.028, 2670436, 19269802.
-
(2009)
Curr Opin Cell Biol
, vol.21
, pp. 140-146
-
-
Hunter, T.1
-
18
-
-
71749098088
-
ELM: the status of the 2010 eukaryotic linear motif resource
-
10.1093/nar/gkp1016, 2808914, 19920119
-
Gould CM, Diella F, Via A, Puntervoll P, Gem̈und C, Chabanis-Davidson S, Michael S, Sayadi A, Bryne JC, Chica C, Seiler M, Davey NE, Haslam N, Weatheritt RJ, Budd A, Hughes T, Pas J, Rychlewski L, Travé G, Aasland R, Helmer-Citterich M, Linding R, Gibson TJ. ELM: the status of the 2010 eukaryotic linear motif resource. Nucleic Acids Res 2010, (38 Database):D167-D180. 10.1093/nar/gkp1016, 2808914, 19920119.
-
(2010)
Nucleic Acids Res
, Issue.38
-
-
Gould, C.M.1
Diella, F.2
Via, A.3
Puntervoll, P.4
Gem̈und, C.5
Chabanis-Davidson, S.6
Michael, S.7
Sayadi, A.8
Bryne, J.C.9
Chica, C.10
Seiler, M.11
Davey, N.E.12
Haslam, N.13
Weatheritt, R.J.14
Budd, A.15
Hughes, T.16
Pas, J.17
Rychlewski, L.18
Travé, G.19
Aasland, R.20
Helmer-Citterich, M.21
Linding, R.22
Gibson, T.J.23
more..
-
19
-
-
0029082078
-
Antigen and Fc receptor signaling. The awesome power of the immunoreceptor tyrosine-based activation motif (ITAM)
-
Cambier JC. Antigen and Fc receptor signaling. The awesome power of the immunoreceptor tyrosine-based activation motif (ITAM). J Immunol 1995, 155:3281-3285.
-
(1995)
J Immunol
, vol.155
, pp. 3281-3285
-
-
Cambier, J.C.1
-
20
-
-
49249103754
-
Immunoreceptor tyrosine-based inhibition motifs: a quest in the past and future
-
Daëron M, Jaeger S, Du Pasquier L, Vivier E. Immunoreceptor tyrosine-based inhibition motifs: a quest in the past and future. Immunol Rev 2008, 224:11-43.
-
(2008)
Immunol Rev
, vol.224
, pp. 11-43
-
-
Daëron, M.1
Jaeger, S.2
Du Pasquier, L.3
Vivier, E.4
-
21
-
-
28044433451
-
Protein posttranslational modifications: the chemistry of proteome diversifications
-
10.1002/anie.200501023, 16267872
-
Walsh CT, Garneau-Tsodikova S, Gatto GJ. Protein posttranslational modifications: the chemistry of proteome diversifications. Angew Chem Int Ed Engl 2005, 44:7342-7372. 10.1002/anie.200501023, 16267872.
-
(2005)
Angew Chem Int Ed Engl
, vol.44
, pp. 7342-7372
-
-
Walsh, C.T.1
Garneau-Tsodikova, S.2
Gatto, G.J.3
-
22
-
-
0034614490
-
Signaling--2000 and beyond
-
10.1016/S0092-8674(00)81688-8, 10647936
-
Hunter T. Signaling--2000 and beyond. Cell 2000, 100:113-127. 10.1016/S0092-8674(00)81688-8, 10647936.
-
(2000)
Cell
, vol.100
, pp. 113-127
-
-
Hunter, T.1
-
23
-
-
0037032835
-
The protein kinase complement of the human genome
-
10.1126/science.1075762, 12471243
-
Manning G, Whyte DB, Martinez R, Hunter T, Sudarsanam S. The protein kinase complement of the human genome. Science 2002, 298:1912-1934. 10.1126/science.1075762, 12471243.
-
(2002)
Science
, vol.298
, pp. 1912-1934
-
-
Manning, G.1
Whyte, D.B.2
Martinez, R.3
Hunter, T.4
Sudarsanam, S.5
-
24
-
-
0031657807
-
The ubiquitin system
-
10.1146/annurev.biochem.67.1.425, 9759494
-
Hershko A, Ciechanover A. The ubiquitin system. Annu Rev Biochem 1998, 67:425-479. 10.1146/annurev.biochem.67.1.425, 9759494.
-
(1998)
Annu Rev Biochem
, vol.67
, pp. 425-479
-
-
Hershko, A.1
Ciechanover, A.2
-
25
-
-
67649964217
-
RING domain E3 ubiquitin ligases
-
10.1146/annurev.biochem.78.101807.093809, 19489725
-
Deshaies RJ, Joazeiro CA. RING domain E3 ubiquitin ligases. Annu Rev Biochem 2009, 78:399-434. 10.1146/annurev.biochem.78.101807.093809, 19489725.
-
(2009)
Annu Rev Biochem
, vol.78
, pp. 399-434
-
-
Deshaies, R.J.1
Joazeiro, C.A.2
-
26
-
-
38149083357
-
Rule-based modelling of cellular signalling
-
Danos V, Feret J, Fontana W, Harmer R, Krivine J. Rule-based modelling of cellular signalling. Lect Notes Comput Sci 2007, 4703:17-41.
-
(2007)
Lect Notes Comput Sci
, vol.4703
, pp. 17-41
-
-
Danos, V.1
Feret, J.2
Fontana, W.3
Harmer, R.4
Krivine, J.5
-
27
-
-
10244219918
-
BioNetGen: software for rule-based modeling of signal transduction based on the interactions of molecular domains
-
10.1093/bioinformatics/bth378, 15217809
-
Blinov ML, Faeder JR, Goldstein B, Hlavacek WS. BioNetGen: software for rule-based modeling of signal transduction based on the interactions of molecular domains. Bioinformatics 2004, 20:3289-3291. 10.1093/bioinformatics/bth378, 15217809.
-
(2004)
Bioinformatics
, vol.20
, pp. 3289-3291
-
-
Blinov, M.L.1
Faeder, J.R.2
Goldstein, B.3
Hlavacek, W.S.4
-
28
-
-
20144385752
-
Rule-based modeling of biochemical networks
-
Faeder JR, Blinov ML, Goldstein B, Hlavacek WS. Rule-based modeling of biochemical networks. Complexity 2005, 10:22-41.
-
(2005)
Complexity
, vol.10
, pp. 22-41
-
-
Faeder, J.R.1
Blinov, M.L.2
Goldstein, B.3
Hlavacek, W.S.4
-
29
-
-
65649154507
-
Rule-based modeling of biochemical systems with BioNetGen
-
Faeder JR, Blinov ML, Hlavacek WS. Rule-based modeling of biochemical systems with BioNetGen. Methods Mol Biol 2009, 500:1-55.
-
(2009)
Methods Mol Biol
, vol.500
, pp. 1-55
-
-
Faeder, J.R.1
Blinov, M.L.2
Hlavacek, W.S.3
-
30
-
-
38149064616
-
Scalable simulation of cellular signaling networks
-
Danos V, Feret J, Fontana W, Krivine J. Scalable simulation of cellular signaling networks. Lect Notes Comput Sci 2007, 4807:139-157.
-
(2007)
Lect Notes Comput Sci
, vol.4807
, pp. 139-157
-
-
Danos, V.1
Feret, J.2
Fontana, W.3
Krivine, J.4
-
31
-
-
51849129931
-
Kinetic Monte Carlo method for rule-based modeling of biochemical networks
-
Yang J, Monine MI, Faeder JR, Hlavacek WS. Kinetic Monte Carlo method for rule-based modeling of biochemical networks. Phys Rev E 2008, 78:031910.
-
(2008)
Phys Rev E
, vol.78
, pp. 031910
-
-
Yang, J.1
Monine, M.I.2
Faeder, J.R.3
Hlavacek, W.S.4
-
32
-
-
63549099634
-
Simulation of large-scale rule-based models
-
10.1093/bioinformatics/btp066, 2660871, 19213740
-
Colvin J, Monine MI, Faeder JR, Hlavacek WS, Von Hoff DD, Posner RG. Simulation of large-scale rule-based models. Bioinformatics 2009, 25:910-917. 10.1093/bioinformatics/btp066, 2660871, 19213740.
-
(2009)
Bioinformatics
, vol.25
, pp. 910-917
-
-
Colvin, J.1
Monine, M.I.2
Faeder, J.R.3
Hlavacek, W.S.4
Von Hoff, D.D.5
Posner, R.G.6
-
33
-
-
14844289958
-
Automatic generation of cellular reaction networks with Moleculizer 1.0
-
10.1038/nbt1054, 15637632
-
Lok L, Brent R. Automatic generation of cellular reaction networks with Moleculizer 1.0. Nat Biotechnol 2005, 23:131-136. 10.1038/nbt1054, 15637632.
-
(2005)
Nat Biotechnol
, vol.23
, pp. 131-136
-
-
Lok, L.1
Brent, R.2
-
34
-
-
33746595848
-
Key role of local regulation in chemosensing revealed by a new molecular interaction-based modeling method
-
10.1371/journal.pcbi.0020082, 1513273, 16854213
-
Meier-Schellersheim M, Xu X, Angermann B, Kunkel EJ, Jin T, Germain RN. Key role of local regulation in chemosensing revealed by a new molecular interaction-based modeling method. PLoS Comput Biol 2006, 2:e82. 10.1371/journal.pcbi.0020082, 1513273, 16854213.
-
(2006)
PLoS Comput Biol
, vol.2
-
-
Meier-Schellersheim, M.1
Xu, X.2
Angermann, B.3
Kunkel, E.J.4
Jin, T.5
Germain, R.N.6
-
35
-
-
36049044199
-
Executable cell biology
-
10.1038/nbt1356, 17989686
-
Fisher J, Henzinger TA. Executable cell biology. Nat Biotechnol 2007, 25:1239-1249. 10.1038/nbt1356, 17989686.
-
(2007)
Nat Biotechnol
, vol.25
, pp. 1239-1249
-
-
Fisher, J.1
Henzinger, T.A.2
-
36
-
-
54049108116
-
Domain-oriented reduction of rule-based network models
-
10.1049/iet-syb:20070081, 2628550, 19045829
-
Borisov NM, Chistopolsky AS, Faeder JR, Kholodenko BN. Domain-oriented reduction of rule-based network models. IET Syst Biol 2008, 2:342-351. 10.1049/iet-syb:20070081, 2628550, 19045829.
-
(2008)
IET Syst Biol
, vol.2
, pp. 342-351
-
-
Borisov, N.M.1
Chistopolsky, A.S.2
Faeder, J.R.3
Kholodenko, B.N.4
-
37
-
-
61349127270
-
ALC: automated reduction of rule-based models
-
10.1186/1752-0509-2-43, 2636783, 18973705
-
Koschorreck M, Gilles ED. ALC: automated reduction of rule-based models. BMC Syst Biol 2008, 2:91. 10.1186/1752-0509-2-43, 2636783, 18973705.
-
(2008)
BMC Syst Biol
, vol.2
, pp. 91
-
-
Koschorreck, M.1
Gilles, E.D.2
-
38
-
-
64549144670
-
Programming with models: modularity and abstraction provide powerful capabilities for systems biology
-
10.1098/rsif.2008.0205, 2659579, 18647734
-
Mallavarapu A, Thomson M, Ullian B, Gunawardena J. Programming with models: modularity and abstraction provide powerful capabilities for systems biology. J R Soc Interface 2009, 6:257-270. 10.1098/rsif.2008.0205, 2659579, 18647734.
-
(2009)
J R Soc Interface
, vol.6
, pp. 257-270
-
-
Mallavarapu, A.1
Thomson, M.2
Ullian, B.3
Gunawardena, J.4
-
39
-
-
69949127857
-
Efficient stochastic simulation of reaction-diffusion processes via direct compilation
-
10.1093/bioinformatics/btp387, 2734316, 19578038
-
Lis M, Artyomov MN, Devadas S, Chakraborty AK. Efficient stochastic simulation of reaction-diffusion processes via direct compilation. Bioinformatics 2009, 25:2289-2291. 10.1093/bioinformatics/btp387, 2734316, 19578038.
-
(2009)
Bioinformatics
, vol.25
, pp. 2289-2291
-
-
Lis, M.1
Artyomov, M.N.2
Devadas, S.3
Chakraborty, A.K.4
-
40
-
-
65649104062
-
GetBonNie for building, analyzing and sharing rule-based models
-
10.1093/bioinformatics/btp173, 2682519, 19321734
-
Hu B, Fricke GM, Faeder JR, Posner RG, Hlavacek WS. GetBonNie for building, analyzing and sharing rule-based models. Bioinformatics 2009, 25:1457-1460. 10.1093/bioinformatics/btp173, 2682519, 19321734.
-
(2009)
Bioinformatics
, vol.25
, pp. 1457-1460
-
-
Hu, B.1
Fricke, G.M.2
Faeder, J.R.3
Posner, R.G.4
Hlavacek, W.S.5
-
41
-
-
66149151035
-
Internal coarse-graining of molecular systems
-
10.1073/pnas.0809908106, 2672529, 19346467
-
Feret J, Danos V, Krivine J, Harmer R, Fontana W. Internal coarse-graining of molecular systems. Proc Natl Acad Sci USA 2009, 106:6453-6458. 10.1073/pnas.0809908106, 2672529, 19346467.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 6453-6458
-
-
Feret, J.1
Danos, V.2
Krivine, J.3
Harmer, R.4
Fontana, W.5
-
42
-
-
77950833499
-
Detailed simulations of cell biology with Smoldyn 2.1
-
10.1371/journal.pcbi.1000705, 2837389, 20300644
-
Andrews SS, Addy NJ, Brent R, Arkin AP. Detailed simulations of cell biology with Smoldyn 2.1. PLoS Comput Biol 2010, 6:e1000705. 10.1371/journal.pcbi.1000705, 2837389, 20300644.
-
(2010)
PLoS Comput Biol
, vol.6
-
-
Andrews, S.S.1
Addy, N.J.2
Brent, R.3
Arkin, A.P.4
-
43
-
-
77951885191
-
Meredys, a multi-compartment reaction-diffusion simulator using multistate realistic molecular complexes
-
10.1186/1752-0509-4-24, 2848630, 20233406
-
Tolle DP, Le Novère N. Meredys, a multi-compartment reaction-diffusion simulator using multistate realistic molecular complexes. BMC Syst Biol 2010, 4:24. 10.1186/1752-0509-4-24, 2848630, 20233406.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 24
-
-
Tolle, D.P.1
Le Novère, N.2
-
44
-
-
77953064219
-
Rule-based spatial modeling with diffusing geometrically constrained molecules
-
2894822, 20525292
-
Gruenert G, Ibrahim B, Lenser T, Lohel M, Hinze T, Dittrich P. Rule-based spatial modeling with diffusing geometrically constrained molecules. Bioinformatics 2010, 11:303. 2894822, 20525292.
-
(2010)
Bioinformatics
, vol.11
, pp. 303
-
-
Gruenert, G.1
Ibrahim, B.2
Lenser, T.3
Lohel, M.4
Hinze, T.5
Dittrich, P.6
-
45
-
-
77955950321
-
RuleMonkey: software for stochastic simulation of rule-based models
-
2921409, 20673321
-
Colvinr J, Monine MI, Gutenkunst RN, Hlavacek WS, Von Hoff DD, Psner RG. RuleMonkey: software for stochastic simulation of rule-based models. Bioinformatics 2010, 11:404. 2921409, 20673321.
-
(2010)
Bioinformatics
, vol.11
, pp. 404
-
-
Colvinr, J.1
Monine, M.I.2
Gutenkunst, R.N.3
Hlavacek, W.S.4
Von Hoff, D.D.5
Psner, R.G.6
-
46
-
-
21644485536
-
Combinatorial complexity and dynamical restriction of network flows in signal transduction
-
Faeder JR, Blinov ML, Goldstein B, Hlavacek WS. Combinatorial complexity and dynamical restriction of network flows in signal transduction. Syst Biol 2005, 2:5-15.
-
(2005)
Syst Biol
, vol.2
, pp. 5-15
-
-
Faeder, J.R.1
Blinov, M.L.2
Goldstein, B.3
Hlavacek, W.S.4
-
47
-
-
32044469862
-
A network model of early events in epidermal growth factor receptor signaling that accounts for combinatorial complexity
-
10.1016/j.biosystems.2005.06.014, 16233948
-
Blinov ML, Faeder JR, Goldstein B, Hlavacek WS. A network model of early events in epidermal growth factor receptor signaling that accounts for combinatorial complexity. BioSystems 2006, 83:136-151. 10.1016/j.biosystems.2005.06.014, 16233948.
-
(2006)
BioSystems
, vol.83
, pp. 136-151
-
-
Blinov, M.L.1
Faeder, J.R.2
Goldstein, B.3
Hlavacek, W.S.4
-
48
-
-
34047224747
-
Structure-based kinetic models of modular signaling protein function: focus on Shp2
-
10.1529/biophysj.106.093484, 1864834, 17208977
-
Barua D, Faeder JR, Haugh JM. Structure-based kinetic models of modular signaling protein function: focus on Shp2. Biophys J 2007, 92:2290-2300. 10.1529/biophysj.106.093484, 1864834, 17208977.
-
(2007)
Biophys J
, vol.92
, pp. 2290-2300
-
-
Barua, D.1
Faeder, J.R.2
Haugh, J.M.3
-
49
-
-
43149099006
-
Computational models of tandem Src homology 2 domain interactions and application to phosphoinositide 3-kinase
-
10.1074/jbc.M708359200, 2276335, 18204097
-
Barua D, Faeder JR, Haugh JM. Computational models of tandem Src homology 2 domain interactions and application to phosphoinositide 3-kinase. J Biol Chem 2008, 283:7338-7345. 10.1074/jbc.M708359200, 2276335, 18204097.
-
(2008)
J Biol Chem
, vol.283
, pp. 7338-7345
-
-
Barua, D.1
Faeder, J.R.2
Haugh, J.M.3
-
50
-
-
66249114051
-
A bipolar clamp mechanism for activation of Jak-family protein tyrosine kinases
-
10.1371/journal.pcbi.1000364, 2667146, 19381268
-
Barua D, Faeder JR, Haugh JM. A bipolar clamp mechanism for activation of Jak-family protein tyrosine kinases. PLoS Comput Biol 2009, 5:e1000364. 10.1371/journal.pcbi.1000364, 2667146, 19381268.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Barua, D.1
Faeder, J.R.2
Haugh, J.M.3
-
51
-
-
36549008035
-
Graph theory for rule-based modeling of biochemical networks
-
Blinov ML, Yang J, Faeder JR, Hlavacek WS. Graph theory for rule-based modeling of biochemical networks. Lect Notes Comput Sci 2006, 4230:89-106.
-
(2006)
Lect Notes Comput Sci
, vol.4230
, pp. 89-106
-
-
Blinov, M.L.1
Yang, J.2
Faeder, J.R.3
Hlavacek, W.S.4
-
53
-
-
40549119812
-
Abstract interpretation of cellular signalling networks
-
Danos V, Feret J, Fontana W, Krivine J. Abstract interpretation of cellular signalling networks. Lect Notes Comput Sci 2008, 4905:83-97.
-
(2008)
Lect Notes Comput Sci
, vol.4905
, pp. 83-97
-
-
Danos, V.1
Feret, J.2
Fontana, W.3
Krivine, J.4
-
54
-
-
32344433781
-
Graphical rule-based representation of signal-transduction networks
-
ACM Press, Liebrock LM
-
Faeder JR, Blinov ML, Hlavacek WS. Graphical rule-based representation of signal-transduction networks. Proceedings of the 2005 ACM Symposium on Applied Computing: 13-17 March 2005; Santa Fe, NM 2005, 133-140. ACM Press, Liebrock LM.
-
(2005)
Proceedings of the 2005 ACM Symposium on Applied Computing: 13-17 March 2005; Santa Fe, NM
, pp. 133-140
-
-
Faeder, J.R.1
Blinov, M.L.2
Hlavacek, W.S.3
-
55
-
-
0002603293
-
Practical graph isomorphism
-
McKay BD. Practical graph isomorphism. Congressus Numerantium 1981, 30:45-87.
-
(1981)
Congressus Numerantium
, vol.30
, pp. 45-87
-
-
McKay, B.D.1
-
56
-
-
0026705903
-
Genetic evidence for the involvement of the lck tyrosine kinase in signal transduction through the T cell antigen receptor
-
10.1016/0092-8674(92)90428-F, 1505025
-
Straus DB, Weiss A. Genetic evidence for the involvement of the lck tyrosine kinase in signal transduction through the T cell antigen receptor. Cell 1992, 70:585-593. 10.1016/0092-8674(92)90428-F, 1505025.
-
(1992)
Cell
, vol.70
, pp. 585-593
-
-
Straus, D.B.1
Weiss, A.2
-
57
-
-
61849128182
-
T-cell receptor proximal signaling via the Src-family kinases, Lck and Fyn, influences T-cell activation, differentiation, and tolerance
-
10.1111/j.1600-065X.2008.00745.x, 19290918
-
Salmond RJ, Filby A, Qureshi I, Caserta S, Zamoyska R. T-cell receptor proximal signaling via the Src-family kinases, Lck and Fyn, influences T-cell activation, differentiation, and tolerance. Immunol Rev 2009, 228:9-22. 10.1111/j.1600-065X.2008.00745.x, 19290918.
-
(2009)
Immunol Rev
, vol.228
, pp. 9-22
-
-
Salmond, R.J.1
Filby, A.2
Qureshi, I.3
Caserta, S.4
Zamoyska, R.5
-
58
-
-
0025881652
-
The lck tyrosine protein kinase
-
Sefton BM. The lck tyrosine protein kinase. Oncogene 1991, 6:683-686.
-
(1991)
Oncogene
, vol.6
, pp. 683-686
-
-
Sefton, B.M.1
-
59
-
-
0028171622
-
Induction of hyperphosphorylation and activation of the p56lck protein tyrosine kinase by phenylarsine oxide, a phosphotyrosine phosphatase inhibitor
-
10.1016/0161-5890(94)90047-7, 7997241
-
Oetken C, Willebrand MV, Marie-Cardine A, Pessa-Morikawa T, Ståhls A, Fisher S, Mustelin T. Induction of hyperphosphorylation and activation of the p56lck protein tyrosine kinase by phenylarsine oxide, a phosphotyrosine phosphatase inhibitor. Mol Immunol 1994, 31:1295-1302. 10.1016/0161-5890(94)90047-7, 7997241.
-
(1994)
Mol Immunol
, vol.31
, pp. 1295-1302
-
-
Oetken, C.1
Willebrand, M.V.2
Marie-Cardine, A.3
Pessa-Morikawa, T.4
Ståhls, A.5
Fisher, S.6
Mustelin, T.7
-
60
-
-
0029746173
-
Regulation of the Lck SH2 domain by tyrosine phosphorylation
-
10.1074/jbc.271.40.24880, 8798764
-
Couture C, Songyang Z, Jascur T, Williams S, Tailor P, Cantley LC, Mustelin T. Regulation of the Lck SH2 domain by tyrosine phosphorylation. J Biol Chem 1996, 271:24880-24884. 10.1074/jbc.271.40.24880, 8798764.
-
(1996)
J Biol Chem
, vol.271
, pp. 24880-24884
-
-
Couture, C.1
Songyang, Z.2
Jascur, T.3
Williams, S.4
Tailor, P.5
Cantley, L.C.6
Mustelin, T.7
-
61
-
-
0025016458
-
The CD4 associated tyrosine protein kinase p56lck is positively regulated through its site of autophosphorylation
-
Veillette A, Fournel M. The CD4 associated tyrosine protein kinase p56lck is positively regulated through its site of autophosphorylation. Oncogene 1990, 5:1455-1462.
-
(1990)
Oncogene
, vol.5
, pp. 1455-1462
-
-
Veillette, A.1
Fournel, M.2
-
62
-
-
0026549591
-
Regulation of the enzymatic function of the lymphocyte-specific tyrosine protein kinase p56lck by the non-catalytic SH2 and SH3 domains
-
Veillette A, Caron L, Fournel M, Pawson T. Regulation of the enzymatic function of the lymphocyte-specific tyrosine protein kinase p56lck by the non-catalytic SH2 and SH3 domains. Oncogene 1992, 7:971-980.
-
(1992)
Oncogene
, vol.7
, pp. 971-980
-
-
Veillette, A.1
Caron, L.2
Fournel, M.3
Pawson, T.4
-
63
-
-
34548732682
-
Reciprocal regulation of SH3 and SH2 domain binding via tyrosine phosphorylation of a common site in CD3ε{lunate}
-
Kesti T, Ruppelt A, Wang JH, Liss M, Wagner R, Tasken K, Saksela K. Reciprocal regulation of SH3 and SH2 domain binding via tyrosine phosphorylation of a common site in CD3ε{lunate}. J Immunol 2007, 179:878-885.
-
(2007)
J Immunol
, vol.179
, pp. 878-885
-
-
Kesti, T.1
Ruppelt, A.2
Wang, J.H.3
Liss, M.4
Wagner, R.5
Tasken, K.6
Saksela, K.7
-
64
-
-
84888276155
-
Nauty
-
Nauty. , http://cs.anu.edu.au/people/bdm/nauty/
-
-
-
-
66
-
-
84974380230
-
Asymmetric and symmetric graphs
-
Wright EM. Asymmetric and symmetric graphs. Glasgow Math J 1974, 15:69-73.
-
(1974)
Glasgow Math J
, vol.15
, pp. 69-73
-
-
Wright, E.M.1
-
67
-
-
84888274930
-
BioNetGen
-
BioNetGen. , http://www.bionetgen.org/
-
-
-
-
68
-
-
0016870630
-
An algorithm for subgraph isomorphism
-
Ullmann JR. An algorithm for subgraph isomorphism. J ACM 1976, 23:31-42.
-
(1976)
J ACM
, vol.23
, pp. 31-42
-
-
Ullmann, J.R.1
-
69
-
-
84887107917
-
NetworkX
-
NetworkX. , http://networkx.lanl.gov
-
-
-
-
70
-
-
84888279559
-
The graph database
-
The graph database. , http://amalfi.dis.unina.it/graph/doc/graphdb.html
-
-
-
|