Modelling and analysis of an ensemble of eukaryotic translation initiation models

IET Systems Biology

Volumn 5, Issue 1, 2011, Pages 2-14

  Nayak, S ^a   Siddiqui, J K ^a   Varner, J D ^a  

^a Cornell University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL CYCLE; EUKARYOTIC TRANSLATION; GROWTH FACTOR; MOLECULAR BASIS; NEGATIVE REGULATORS; NOMINAL OPERATIONS; PROTEIN SYNTHESIS; ROBUSTNESS ANALYSIS; STRUCTURAL FEATURE; THERAPEUTIC STRATEGY;

INTEGRATION; MATHEMATICAL MODELS;

PEPTIDES;

EUKARYOTA;

INITIATION FACTOR 4E;

CELL CYCLE; HUMAN; PHOSPHORYLATION; PROTEIN SYNTHESIS;

CELL CYCLE; EUKARYOTIC INITIATION FACTOR-4E; HUMANS; PHOSPHORYLATION; PROTEIN BIOSYNTHESIS;

EID: 78751693976     PISSN: 17518849     EISSN: None     Source Type: Journal    
DOI: 10.1049/iet-syb.2009.0065     Document Type: Article

References (118)

1. De Benedetti, A., and Graff, J.R.: 'EIF-4E expression and its role in malignancies and metastases', Oncogene, 2004, 23, p. 3189-319910.1038/sj.onc.1207545
2. Zimmer, S.G., DeBenedetti, A., and Graff, J.R.: 'Translational control of malignancy: the mRNA cap-binding protein, Eif-4e, as a central regulator of tumor formation, growth, invasion and metastasis', Anticancer Res., 2000, 20, p. 1343-1351
3. Carlson, J.M., and Doyle, J.: 'Complexity and robustness', Proc. Natl. Acad. Sci. USA, 2002, 99, p. 2358-254510.1073/pnas.012582499 0027-8424
4. Kitano, H.: 'Biological robustness', Nat. Rev. Genet., 2004, 5, p. 826-83710.1038/nrg1471
5. Stelling, J., Sauer, U., Szallasi, Z., Doyle, F.J., and Doyle, J.: 'Robustness of cellular function', Cell, 2004, 118, p. 675-68510.1016/j.cell.2004.09.008
6. Richter, J.D., and Sonenberg, N.: 'Regulation of cap-dependent translation by Eif4e inhibitory proteins', Nature, 2005, 433, p. 477-48010.1038/nature03205 0028-0836
7. Hershey, J.: 'Translational control in mammalian cells', Annu. Rev. Biochem., 1991, 60, p. 717-75510.1146/annurev.bi.60.070191.003441
8. Graff, J., Konicek, B., and McNulty, A.: et al. 'Increased AKT activity contributes to prostate cancer progression by dramatically accelerating prostate tumor growth and diminishing p27Kip1 expression', J. Biol. Chem., 2000, 275, p. 24500-2450510.1074/jbc.M003145200
9. Ringel, M., Hayre, N., and Saito, J.: et al. 'Overexpression and overactivation of Akt in thyroid carcinoma 1', Cancer Res., 2001, 61, p. 6105-6111
10. Zhou, X., Tan, M., and Stone Hawthorne, V.: et al. 'Activation of the Akt/Mammalian target of rapamycin/4E-BP1 pathway by ErbB2 overexpression predicts tumor progression in breast cancers', Clin. Cancer Res., 2004, 10, p. 6779-678810.1158/1078-0432.CCR-04-0112
11. Bauer, C., Brass, N., and Diesinger, I.: et al. 'Overexpression of the eukaryotic translation initiation factor 4 G(eIF 4 G-1) in squamous cell lung carcinoma', Int. J. Cancer, 2002, 98, p. 181-18510.1002/ijc.10180
12. Li, B., Liu, L., Dawson, M., and De Benedetti, A.: 'Overexpression of eukaryotic initiation factor 4 E(eIF 4 E) in breast carcinoma', Cancer, 1997, 79, p. 2385-239010.1002/(SICI)1097-0142(19970615)79:12<2385::AID-CNCR13>3.0.CO;2-N
13. Bjornsti, M., and Houghton, P.: 'Lost in translation: dysregulation of cap-dependent translation and cancer', Cancer Cell, 2004, 5, p. 519-52310.1016/j.ccr.2004.05.027
14. Stelling, J., Gilles, E.D., and Doyle, F.: 'Robustness properties of circadian clock architectures', Proc. Natl. Acad. Sci. USA, 2004, 101, p. 13210-1321510.1073/pnas.0401463101 0027-8424
15. Luan, D., Zai, M., and Varner, J.D.: 'Computationally derived points of fragility of a human cascade are consistent with current therapeutic strategies', PLoS. Comput. Biol., 2007, 3, p. e14210.1371/journal.pcbi.0030142
16. Nayak, S., Salim, S., Luan, D., Zai, M., and Varner, J.D.: 'A test of highly optimized tolerance reveals fragile cell-cycle mechanisms are molecular targets in clinical cancer trials', PLoS One, 2008, 3, p. e201610.1371/journal.pone.0002016
17. Kremling, A., Fischer, S., and Gadkar, K.: et al. 'A benchmark for methods in reverse engineering and model discrimination: problem formulation and solutions', Genome Res., 2004, 14, p. 1773-178510.1101/gr.1226004
18. Mahdavi, A., Davey, R.E., Bhola, P., Yin, T., and Zandstra, P.W.: 'Sensitivity analysis of intracellular signaling pathway kinetics predicts targets for stem cell fate control', PLoS Comput. Biol., 2007, 3, p. 1257-126710.1371/journal.pcbi.0030130
19. Shoemaker, J., and Doyle, F.: 'Identifying fragilities in biochemical networks: robust performance analysis of fas signaling-induced apoptosis', Biophys. J., 2008, 95, p. 2610-262310.1529/biophysj.107.123398 0006-3495
20. Assmus, H.E., Herwig, R., Cho, K.H., and Wolkenhauer, O.: 'Dynamics of biological systems: role of systems biology in medical research', Exp. Rev. Molec. Diagn., 2006, 6, p. 891-90210.1586/14737159.6.6.891
21. Arnaud, C.A.: 'Systems biology's clinical future', Chem. Eng. News., 2006, 84, p. 17-26
22. Kitano, H.: 'Computational systems biology', Nature, 2002, 420, p. 206-21010.1038/nature01254 0028-0836
23. Huang, C.Y., and Ferrell, J.E.: 'Ultrasensitivity in the mitogen-activated protein kinase cascade', Proc. Natl. Acad. Sci. USA, 1996, 93, p. 10078-1008310.1073/pnas.93.19.10078 0027-8424
24. Fussenegger, M., Bailey, J.E., and Varner, J.: 'A mathematical model of caspase function in apoptosis', Nat. Biotechnol., 2000, 18, p. 768-77410.1038/81208
25. Schoeberl, B., Eichler-Jonsson, C., Gilles, E.D., and Müller, G.: 'Computational modeling of the dynamics of the map kinase cascade activated by surface and internalized EGF receptors', Nat. Biotechnol., 2002, 20, p. 370-37510.1038/nbt0402-370
26. Stelling, J., Gilles, E.D., and Doyle, F.J.: 'Robustness properties of circadian clock architectures', Proc. Natl. Acad. Sci. USA, 2004, 101, p. 13210-1321510.1073/pnas.0401463101 0027-8424
27. Queralt, E., Lehane, C., Novak, B., and Uhlmann, F.: 'Downregulation of pp2a(cdc55) phosphatase by separase initiates mitotic exit in budding yeast', Cell, 2006, 125, p. 719-73210.1016/j.cell.2006.03.038
28. Li, H., Ung, C.Y., and Ma, X.H.: et al. 'Pathway sensitivity analysis for detecting pro-proliferation activities of oncogenes and tumor suppressors of epidermal growth factor receptor-extracellular signal-regulated protein kinase pathway at altered protein levels', Cancer, 2009, 115, p. 4246-426310.1002/cncr.24485
29. Stites, E.C., Trampont, P.C., Ma, Z., and Ravichandran, K.S.: 'Network analysis of oncogenic ras activation in cancer', Science, 2007, 318, p. 463-46710.1126/science.1144642 0036-8075
30. Luan, D., Zai, M., and Varner, J.D.: 'Computationally derived points of fragility of a human cascade are consistent with current therapeutic strategies', PLoS Comput. Biol., 2007, 3, p. e14210.1371/journal.pcbi.0030142
31. Song, S.O., and Varner, J.: 'Modeling and analysis of the molecular basis of pain in sensory neurons', PLoS One, 2009, 4, p. e675810.1371/journal.pone.0006758
32. Fields, S., and Sternglanz, R.: 'The two-hybrid system: an assay for protein-protein interactions', Trends Genet., 1994, 10, p. 282-29210.1016/0168-9525(90)90012-U
33. Cagney, G., Uetz, P., and Fields, S.: 'High-throughput screening for protein-protein interactions using two-hybrid assay', Methods Enzymol., 2000, 328, p. 3-1410.1016/S0076-6879(00)28386-9
34. Uetz, P., Giot, L., and Cagney, G.: et al. 'A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae', Nature, 2000, 420, p. 623-6270028-0836
35. Ito, T., Chiba, T., and Ozawa, R.: et al. 'A comprehensive two-hybrid analysis to explore the yeast protein interactome', Proc. Natl. Acad. Sci. USA, 2001, 98, p. 4569-457410.1073/pnas.061034498 0027-8424
36. You, X., Nguyen, A.W., and Jabaiah, A.: et al. 'Intracellular protein interaction mapping with FRET hybrids', Proc. Natl. Acad. Sci. USA, 2006, 103, p. 18458-1846310.1073/pnas.0605422103 0027-8424
37. Farmer, T.B., and Caprioli, R.M.: 'Determination of protein-protein interactions by matrix-assisted laser desorption/ionization mass spectrometry', J. Mass Spectrom., 1998, 33, p. 697-70410.1002/(SICI)1096-9888(199808)33:8<697::AID-JMS711>3.0.CO;2-H
38. Gavin, A., Bosche, M., and Krause, R.: et al. 'Functional organization of the yeast proteome by systematic analysis of protein complexes', Nature, 2002, 415, p. 141-14710.1038/415141a 0028-0836
39. Ho, Y., Gruhler, A., and Heilbut, A.: et al. 'Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry', Nature, 2002, 415, p. 180-18310.1038/415180a 0028-0836
40. Lee, T.I., Rinaldi, N.J., and Robert, F.: et al. 'Transcriptional regulatory networks in Saccharomyces cerevisiae', Science, 2002, 298, p. 799-80410.1126/science.1075090 0036-8075
41. Fields, S.: 'High-throughput two-hybrid analysis. The promise and the peril', FEBS J., 2005, 272, p. 5391-539910.1111/j.1742-4658.2005.04973.x
42. von Mering, C., Krause, R., and Snel, B.: et al. 'Comparative assessment of large-scale data sets of protein-protein interactions', Nature, 2002, 417, p. 399-40310.1038/nature750 0028-0836
43. Milo, R., Shen-Orr, S., and Itzkovitz, S.: et al. 'Network motifs: simple building blocks of complex networks', Science, 2002, 298, p. 824-82710.1126/science.298.5594.824 0036-8075
44. Yeger-Lotem, E., Sattath, S., and Kashtan, N.: et al. 'Network motifs in integrated cellular networks of transcription-regulation and protein-protein interaction', Proc. Natl. Acad. Sci. USA, 2004, 101, p. 5934-593910.1073/pnas.0306752101 0027-8424
45. Kashtan, N., Itzkovitz, S., Milo, R., and Alon, U.: 'Topological generalizations of network motifs', Phys. Rev. E Stat. Nonlin. Soft Matter Phys., 2004, 70, p. 03190910.1103/PhysRevE.70.031909
46. Yeung, M.K.S., Tegnér, J., and Collins, J.J.: 'Reverse engineering gene networks using singular value decomposition and robust regression', Proc. Natl. Acad. Sci. USA, 2002, 99, p. 6163-616810.1073/pnas.092576199 0027-8424
47. Tegner, J., Yeung, M.K.S., Hasty, J., and Collins, J.J.: 'Reverse engineering gene networks: integrating genetic perturbations with dynamical modeling', Proc. Natl. Acad. Sci. USA, 2003, 100, p. 5944-594910.1073/pnas.0933416100 0027-8424
48. Gupta, A., Varner, J., and Maranas, C.: 'Large-scale inference of the transcriptional regulation of Bacillus subtilis', Comp. Chem. Eng., 2005, 29, p. 565-57610.1016/j.compchemeng.2004.08.030
49. Locasale, J.W., and Wolf-Yadlin, A.: 'Maximum entropy reconstructions of dynamic signaling networks from quantitative proteomics data', PLoS One, 2009, 4, p. e652210.1371/journal.pone.0006522
50. Ananiadou, S., Kell, D.B., and Tsujii, J.i.: 'Text mining and its potential applications in systems biology', Trends Biotechnol., 2006, 24, p. 571-57910.1016/j.tibtech.2006.10.002
51. Jensen, L.J., Kuhn, M., and Stark, M.: et al. 'String 8-a global view on proteins and their functional interactions in 630 organisms', Nucleic Acids Res., 2009, 37, p. D412-D41610.1093/nar/gkn760
52. Linding, R., Jensen, L.J., and Ostheimer, G.J.: et al. 'Systematic discovery of in vivo phosphorylation networks', Cell, 2007, 129, p. 1415-142610.1016/j.cell.2007.05.052
53. Linding, R., Jensen, L.J., and Pasculescu, A.: et al. 'Networkin: a resource for exploring cellular phosphorylation networks', Nucleic Acids Res., 2008, 36, p. D695-D69910.1093/nar/gkm902
54. Aoki-Kinoshita, K.F., and Kanehisa, M.: 'Gene annotation and pathway mapping in kegg', Methods Mol. Biol., 2007, 396, p. 71-9110.1007/978-1-59745-515-2_6
55. Kanehisa, M., Araki, M., and Goto, S.: et al. 'Kegg for linking genomes to life and the environment', Nucleic Acids Res., 2008, 36, p. D480-D48410.1093/nar/gkm882
56. Okuda, S., Yamada, T., and Hamajima, M.: et al. 'Kegg atlas mapping for global analysis of metabolic pathways', Nucleic Acids Res., 2008, 36, p. W423-W42610.1093/nar/gkn282
57. Marintchev, A., and Wagner, G.: 'Translation initiation: structures, mechanisms and evolution', Q. Rev. Biophys., 2005, 37, p. 197-28410.1017/S0033583505004026
58. Merrick, W.C.: 'Cap-dependent and cap-independent translation in eukaryotic systems', Gene, 2004, 332, p. 1-1110.1016/j.gene.2004.02.051
59. Gray, N., and Wickens, M.: 'Control of translation initiation in animals', Ann. Rev. Cell Dev. Biol., 1998, 14, p. 399-45810.1146/annurev.cellbio.14.1.399
60. Cantley, L.: 'The phosphoinositide 3-kinase pathway', Science, 2002, 296, p. 1655-165710.1126/science.296.5573.1655 0036-8075
61. Schoeberl, B., Eichler-Jonsson, C., Gilles, E., and Mueller, G.: 'Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors', Nat. Biotechnol., 2002, 20, p. 370-37510.1038/nbt0402-370
62. Vivanco, I., and Sawyers, C.: 'The phosphatidylinositol 3-Kinase-AKT pathway in human cancer', Nat. Rev. Cancer, 2002, 2, p. 489-50110.1038/nrc839
63. Paez, J., and Sellers, W.: 'PI3K/PTEN/Akt pathway. A critical mediator of oncogenic signaling', Cancer Treat Res., 2003, 115, p. 145-16710.1007/0-306-48158-8_6
64. Sekulic, A., Hudson, C., and Homme, J.: et al. 'A direct linkage between the phosphoinositide 3-kinase-AKT signaling pathway and the mammalian target of rapamycin in mitogen-stimulated and transformed cells 1', Cancer Res., 2000, 60, p. 3504-3513
65. Bjornsti, M., and Houghton, P.: 'The TOR pathway: a target for cancer therapy', Nat. Rev. Cancer, 2004, 4, p. 335-34810.1038/nrc1362
66. Lin, T., Kong, X., and Haystead, T.: et al. 'PHAS-I as a link between mitogen-activated protein kinase and translation initiation', Science, 1994, 266, p. 653-65610.1126/science.7939721 0036-8075
67. Richter, J., and Sonenberg, N.: 'Regulation of cap-dependent translation by eIF4E inhibitory proteins', Nature, 2005, 433, p. 477-48010.1038/nature03205 0028-0836
68. Brunn, G., Hudson, C., and Sekulić, A.: et al. 'Phosphorylation of the translational repressor PHAS-I by the mammalian target of rapamycin', Science, 1997, 277, p. 9910.1126/science.277.5322.99 0036-8075
69. Schmelzle, T., and Hall, M.: 'TOR, a central controller of cell growth', Cell, 2000, 103, p. 253-26210.1016/S0092-8674(00)00117-3
70. Vries, R.G., Flynn, A., and Patel, J.C.: et al. 'Heat shock increases the association of binding protein-1 with initiation factor 4e', J. Biol. Chem., 1997, 272, p. 32779-3278410.1074/jbc.272.52.32779
71. Lorsch, J.R., and Herschlag, D.: 'Kinetic dissection of fundamental processes of eukaryotic translation initiation in vitro', EMBO J., 1999, 18, p. 6705-671710.1093/emboj/18.23.6705
72. Garami, A., Zwartkruis, F.J.T., and Nobukuni, T.: et al. 'Insulin activation of rheb, a mediator of mtor/s6k/4e-bp signaling, is inhibited by tsc1 and 2', Mol. Cell, 2003, 11, p. 1457-146610.1016/S1097-2765(03)00220-X
73. Asthagiri, A.R., and Lauffenburger, D.A.: 'A computational study of feedback effects on signal dynamics in a mitogen-activated protein kinase (MAPK) pathway model', Biotechnol. Prog., 2001, 17, p. 227-23910.1021/bp010009k
74. Brown, K.S., Hill, C.C., and Calero, G.A.: et al. 'The statistical mechanics of complex signaling networks: nerve growth factor signaling', Phys. Biol., 2004, 1, p. 184-19510.1088/1478-3967/1/3/006 1478-3967
75. Mayawala, K., Gelmi, C.A., and Edwards, J.S.: 'MAPK cascade possesses decoupled controllability of signal amplification and duration', Biophys. J., 2004, 87, p. L01-L0210.1529/biophysj.104.051888 0006-3495
76. Hornberg, J.J., Binder, B., and Bruggeman, F.J.: et al. 'Control of MAPK signalling: from complexity to what really matters', Oncogene, 2005, 24, p. 5533-554210.1038/sj.onc.1208817
77. Gadkar, K.G., Varner, J., and Doyle, F.J.: 'Model identification of signal transduction networks from data using a state regulator problem', Syst. Biol. (Stevenage), 2005, 2, p. 17-3010.1049/sb:20045029
78. Gennemark, P., and Wedelin, D.: 'Benchmarks for identification of ordinary differential equations from time series data', Bioinformatics, 2009, 25, p. 780-78610.1093/bioinformatics/btp050
79. Bandara, S., Schlöder, J., Eils, R., Bock, H.G., and Meyer, T.: 'Optimal experimental design for parameter estimation of a cell signaling model', PLoS Comput. Biol., 2009, 5, p. e100055810.1371/journal.pcbi.1000558
80. Battogtokh, D., Asch, D.K., Case, M.E., Arnold, J., and Schuttler, H.-B.: 'An ensemble method for identifying regulatory circuits with special reference to the qa gene cluster of neurospora crassa', Proc. Natl. Acad. Sci. USA, 2002, 99, p. 16904-1690910.1073/pnas.262658899 0027-8424
81. Kuepfer, L., Peter, M., Sauer, U., and Stelling, J.: 'Ensemble modeling for analysis of cell signaling dynamics', Nat. Biotech., 2007, 25, p. 1001-100610.1038/nbt1330
82. Brown, K.S., and Sethna, J.P.: 'Statistical mechanical approaches to models with many poorly known parameters', Phys. Rev. E Stat. Nonlinear Soft. Matter Phys., 2003, 68, p. 02190410.1103/PhysRevE.68.021904 1063-651X
83. Palmer, T., Shutts, G., and Hagedorn, R.: et al. 'Representing model uncertainty in weather and climate prediction', Ann. Rev. Earth Planet. Sci., 2005, 33, p. 163-19310.1146/annurev.earth.33.092203.122552
84. Gutenkunst, R.N., Waterfall, J.J., and Casey, F.P.: et al. 'Universally sloppy parameter sensitivities in systems biology models', PLoS Comput. Biol., 2007, 3, p. 1871-187810.1371/journal.pcbi.0030189
85. Schumer, M., and Steiglitz, K.: 'Adaptive step size random search', IEE Trans. Autom. Control, 1968, 13, p. 270-27610.1109/TAC.1968.1098903
86. Battogtokh, D., Asch, D.K., Case, M.E., Arnold, J., and Schuttler, H.B.: 'An ensemble method for identifying regulatory circuits with special reference to the qa gene cluster of neurospora crassa', Proc. Natl. Acad. Sci. USA, 2002, 99, p. 16904-1690910.1073/pnas.262658899 0027-8424
87. Pause, A., Belsham, G.J., and Gingras, A.C.: et al. 'Insulin-dependent stimulation of protein synthesis by phosphorylation of a regulator of 5'-cap function', Nature, 1994, 371, p. 762-76710.1038/371762a0 0028-0836
88. Mamane, Y., Petroulakis, E., LeBacquer, O., and Sonenberg, N.: 'mtor, translation initiation and cancer', Oncogene, 2006, 25, p. 6416-642210.1038/sj.onc.1209888
89. Li, B.D., Liu, L., Dawson, M., and De Benedetti, A.: 'Overexpression of eukaryotic initiation factor 4e (eif4e) in breast carcinoma', Cancer, 1997, 79, p. 2385-239010.1002/(SICI)1097-0142(19970615)79:12<2385::AID-CNCR13>3.0.CO;2-N
90. De Benedetti, A., Joshi-Barve, S., Rinker-Schaeffer, C., and Rhoads, R.E.: 'Expression of antisense rna against initiation factor Eif-4e mrna in hela cells results in lengthened cell division times, diminished translation rates, and reduced levels of both eif-4e and the p220 component of eif-4f', Mol. Cell Biol., 1991, 11, p. 5435-5445
91. Soni, A., Akcakanat, A., and Singh, G.: et al. 'eIF4E knockdown decreases breast cancer cell growth without activating Akt signaling', Mol. Cancer Ther., 2008, 7, p. 178210.1158/1535-7163.MCT-07-2357
92. Barnhart, B., Lam, J., and Young, R.: et al. 'Effects of 4e-bp1 expression on hypoxic cell cycle inhibition and tumor cell proliferation and survival', Cancer Biol. Ther., 2008, 7, p. 1441-144910.4161/cbt.7.9.6426
93. Rousseau, D., Kaspar, R., Rosenwald, I., Gehrke, L., and Sonenberg, N.: 'Translation initiation of ornithine decarboxylase and nucleocytoplasmic transport of cyclin d1 mrna are increased in cells overexpressing eukaryotic initiation factor 4e', Proc. Natl. Acad. Sci. USA, 1996, 93, p. 1065-107010.1073/pnas.93.3.1065 0027-8424
94. Stambolic, V., Suzuki, A., and dela Pompa, J.L.: et al. 'Negative regulation of pkb/akt-dependent cell survival by the tumor suppressor pten', Cell, 1998, 95, p. 29-3910.1016/S0092-8674(00)81780-8
95. Li, J., Yen, C., and Liaw, D.: et al. 'Pten, a putative protein tyrosine phosphatase gene mutated in human brain, breast, and prostate cancer', Science, 1997, 275, p. 1943-194710.1126/science.275.5308.1943 0036-8075
96. Kitano, H.: 'A robustness based approach to systems-oriented drug design', Nat. Rev. Drug Discov., 2007, 6, p. 202-21010.1038/nrd2195
97. Huang, J., and Manning, B.D.: 'A complex interplay between akt, tsc2 and the two mtor complexes', Biochem. Soc. Trans., 2009, 37, p. 217-22210.1042/BST0370217
98. Dennis, P.B., Pullen, N., Kozma, S.C., and Thomas, G.: 'The principal rapamycinsensitive p70(s6k) phosphorylation sites, t-229 and t-389, are differentially regulated by rapamycin-insensitive kinase kinases', Mol. Cell Biol., 1996, 16, p. 6242-6251
99. Shah, O.J., Anthony, J.C., Kimball, S.R., and Jefferson, L.S.: '4e-bp1 and s6k1: translational integration sites for nutritional and hormonal information in muscle', Am. J. Physiol. Endocrinol. Metab, 2000, 279, p. E715-E729
100. Pullen, N., Dennis, P.B., and Andjelkovic, M.: et al. 'Phosphorylation and activation of p70s6k by pdk1', Science, 1998, 279, p. 707-71010.1126/science.279.5351.707 0036-8075
101. Volarevic, S., and Thomas, G.: 'Role of s6 phosphorylation and s6 kinase in cell growth', Prog. Nucleic. Acid Res. Mol. Biol., 2001, 65, p. 101-12710.1016/S0079-6603(00)65003-1
102. Raught, B., Gingras, A.C., and Gygi, S.P.: et al. 'Serumstimulated, rapamycin-sensitive phosphorylation sites in the eukaryotic translation initiation factor 4gi', EMBO J., 2000, 19, p. 434-44410.1093/emboj/19.3.434
103. Gingras, A.C., Raught, B., and Gygi, S.P.: et al. 'Hierarchical phosphorylation of the translation inhibitor 4e-bp1', Genes Dev., 2001, 15, p. 2852-286410.1101/gad.887201
104. Scheper, G.C., and Proud, C.G.: 'Does phosphorylation of the cap-binding protein eif4e play a role in translation initiation?', Eur. J. Biochem., 2002, 269, p. 5350-535910.1046/j.1432-1033.2002.03291.x
105. Bruce, A., Dennis, B., and Julian, L.: 'Molecular biology of the cell', et al. (Garland Publishing 1994)
106. Mahimainathan, L., and Choudhury, G.G.: 'Inactivation of platelet-derived growth factor receptor by the tumor suppressor PTEN provides a novel mechanism of action of the phosphatase', J. Biol. Chem., 2004, 279, p. 15258-1526810.1074/jbc.M314328200
107. Spiegel, M.R.: 'Statistics: Schaum's easy outlines', (McGraw-Hill 2000)
108. Bondeva, T., Pirola, L., and Bulgarelli-Leva, G.: et al. 'Bifurcation of lipid and protein kinase signals of PI3K to the protein kinases PKB and MAPK', Science, 1998, 282, p. 293-29610.1126/science.282.5387.293 0036-8075
109. Holz, M.K., Ballif, B.A., Gygi, S.P., and Blenis, J.: 'mtor and s6k1 mediate assembly of the translation preinitiation complex through dynamic protein interchange and ordered phosphorylation events', Cell, 2005, 123, p. 569-58010.1016/j.cell.2005.10.024
110. Hu, C., Pang, S., Kong, X., Velleca, M., and Lawrence, J.C.J.: 'Molecular cloning and tissue distribution of phas-i, an intracellular target for insulin and growth factors', Proc. Natl. Acad. Sci. USA, 1994, 91, p. 3730-373410.1073/pnas.91.9.3730 0027-8424
111. Poulin, F., Gingras, A.C., Olsen, H., Chevalier, S., and Sonenberg, N.: '4e-bp3, a new member of the eukaryotic initiation factor 4e-binding protein family', J. Biol. Chem., 1998, 273, p. 14002-1400710.1074/jbc.273.22.14002
112. Gingras, A.C., Gygi, S.P., and Raught, B.: et al. 'Regulation of 4e-bp1 phosphorylation: a novel two-step mechanism', Genes Dev., 1999, 13, p. 1422-143710.1101/gad.13.11.1422
113. Pestova, T., Kolupaeva, V., and Lomakin, I.: et al. 'Molecular mechanisms of translation initiation in eukaryotes', PNAS, 2001, 98, p. 7029-203610.1073/pnas.111145798
114. Unbehaun, A., Borukhov, S., Hellen, C., and Pestova, T.: 'Release of initiation factors from 48S complexes during ribosomal subunit joining and the link between establishment of codon-anticodon base-pairing and hydrolysis of eIF2-bound GTP', Genes Dev., 2004, 18, p. 3078-309310.1101/gad.1255704
115. Holcik, M., and Sonenberg, N.: 'Translational control in stress and apoptosis', Nat. Rev. Mol. Cell Biol., 2005, 6, p. 318-32710.1038/nrm1618
116. Vries, R., Flynn, A., and Patel, J.: et al. 'Heat shock increases the association of binding protein-1 with initiation factor 4E', J. Biol. Chem., 1997, 272, p. 32779-3278410.1074/jbc.272.52.32779
117. Stoneley, M., and Willis, A.: 'Cellular internal ribosome entry segments: structures, trans-acting factors and regulation of gene expression', Oncogene, 2004, 23, p. 3200-320710.1038/sj.onc.1207551
118. Garami, A., Zwartkruis, F., and Nobukuni, T.: et al. 'Insulin activation of Rheb, a mediator of mTOR/S6K/4E-BP signaling, is inhibited by TSC1 and 2', Mol. Cell, 2003, 11, p. 1457-146610.1016/S1097-2765(03)00220-X