Modeling and analysis of early events in T-lymphocyte antigen-activated intracellular-signaling pathways

Journal of Computational and Applied Mathematics

Volumn 184, Issue 1, 2005, Pages 320-341

  Zheng, Yanan ^a   Balakrishnan, Venkataramanan ^b   Buzzard, Greg ^d   Geahlen, Robert ^c   Harrison, Marietta ^c   Rundell, Ann ^a  

^a PURDUE UNIVERSITY   (United States)

^b PURDUE UNIVERSITY   (United States)

^c PURDUE UNIVERSITY   (United States)

^d PURDUE UNIVERSITY   (United States)

Author keywords

Bistability; Feedback regulation; Hysteresis; Mathematical modeling; T cell signaling

Indexed keywords

ANTIGENS; CELLS; CHEMICAL REACTIONS; COMPUTER SIMULATION; MATHEMATICAL MODELS; ORDINARY DIFFERENTIAL EQUATIONS;

BISTABILTY; FEEDBACK REGULATION; T-CELL SIGNALING;

IMMUNOLOGY;

EID: 23344450028     PISSN: 03770427     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cam.2004.08.015     Document Type: Article

References (53)

1. A.K. Abbas, A.H. Lichtman, J.S. Pober, Cellular and Molecular Immunology, third ed., W.B. Saunders Company, London, 1997, pp. 17.
2. O. Acuto D. Cantrell T Cell activation and the cytoskeleton Annu. Rev. Immunol. 18 2000 165-184
3. N.G. Agrawal J.J. Linderman Mathematical modeling of helper T lymphocyte/antigen-presenting cell interactions: Analysis of methods for modifying antigen processing and presentation J. Theor. Biol. 182 1996 487-504
4. B. Alberts, A. Johnson, J. Lewis, M. Raff, K. Roberts, P. Walter, Molecular Biology of the Cell, fourth ed., Garland Publishers, New York, 2002, pp. 865.
5. U.S. Bhalla Robustness of the bistable behavior of a biological signaling feedback loop Chaos 11 2001 221-226
6. F.A. Brightman D.A. Fell Differential feedback regulation of the MAPK cascade underlies the quantitative differences in EGF and NGF signalling in PC12 cells FEBS Lett. 482 2000 169-174
7. L.A. Cary J.A. Cooper Molecular switches in lipid rafts Nature 404 2000 945-947
8. A.K. Chakrabory M.L. Dustin A.S. Shaw In Silico models for cellular and molecular immunology success, promises and challenges Nat. Immunol. 4 2003 933-936
9. C. Chan, Modeling T cell activation, Ph.D. Thesis, Centre for Nonlinear Dynamics and its Applications, University College London, 2002.
10. C. Chan A.J. George J. Stark Cooperative enhancement of specificity in a lattice of T cell receptors Proc. Natl. Acad. Sci. USA 98 2001 5758-5763
11. D. Davidson M. Bakinowski M.L. Thomas V. Horejsi A. Veillette Phosphorylation-dependent regulation of T-cell activation by PAG/Cbp, a lipid-associated transmembrane adaptor Mol. Cell Biol. 23 2003 2017-2028
12. E.J. Doedel, R.C. Paffenroth, A.R. Champneys, T.F. Fairgrieve, Y.A. Kuznetsov, B. Sandstede, et al., Auto 2000: Continuation and Bifurcation Software for Ordinary Differential Equations (with Homcont). 2001, Caltech.
13. M.B. Elowitz A.J. Levine E.D. Siggia P.S. Swain Stochastic gene expression in a single cell Science 297 2002 1183-1186
14. J.R. Faeder W.S. Hlavacek I. Reischl M.L. Blinov H. Metzger A. Redondo et al. Investigation of early events in FcεRI-mediated signaling using a detailed mathematical model J. Immunol. 170 2003 3769-3781
15. J.E. Ferrell E.M. Machleder The biochemical basis of an all-or-none cell fate switch in xenopus oocytes Science 280 1998 895-897
16. B.A. Freiberg H. Kupfer W. Maslanik J. Delli J. Kappler D.M. Zaller et al. Staging and resetting T cell activation in SMACs Nat. Immunol. 3 2002 911-917
17. G.C. Gary B.M. Sefton Specific dephosphorylation of the Lck tyrosine protein kinase at Tyr-394 by the SHP-1 protein-tyrosine phosphatase J. Biol. Chem. 276 2001 23173-23178
18. R.N. Germain I. Stefanova The dynamics of T cell receptor signaling: Complex orchestration and the key roles of tempo and cooperation Annu. Rev. Immunol. 17 1999 467-522
19. R.A. Goldsby, T.J. Kindt, B.A. Osborne, J. Kuby, Immunology, fifth ed., W.H. Freeman and Company, New York, 2003, pp. 13.
20. Z. Grossman W.E. Paul Autoreactivity, dynamic tuning and selectivity-opinion Curr. Opin. Immunol. 13 2001 687-698
21. R. Heinrich B.G. Neel T.A. Rapoport Mathematical models of protein kinase signal transduction Mol. Cell 9 2002 957-970
22. W.S. Hlavacek A. Redondo C. Wofsy B. Goldstein Kinetic proofreading in receptor-mediated transduction of cellular signals: Receptor aggregation, partially activated receptors, and cytosolic messengers B Math. Biol. 64 2002 887-911
23. E.C. Jury P.S. Kabouridis A. Abba R.A. Mageed D.A. Isenberg Increased ubiquitination and reduced expression of Lck in T lymphocytes from patients with systemic lupus erythematosus Arthrit. Rheum. 48 2003 1343-1354
24. B.N. Kholodenko Negative feedback and ultrasensitivity can bring about oscillations in the mitogen-activated protein kinase cascades Eur. J. Biochem. 267 2000 1583-1588
25. S. Kim S.M. Patrick N.S. Braunstein J.L. Thomas E.F. Leonard Modeling of early events in T cell signal transduction after controlled T cell activation by peptide major histocompatibility complex Ann. Biomed. Eng. 29 2001 373-383
26. M.E. Labadia S. Jakes C.A. Grygon D.J. Greenwood J. Schembri-King S.M. Lukas et al. Interaction between the SH2 domains of ZAP-70 and the tyrosine-based activation motif 1 sequence of the ζ subunit of the T-cell receptor Arch. Biochem. Biophys. 342 1997 117-125
27. K.H. Lee A.R. Dinner C. Tu G. Campi S. Raychaudhuri R. Varma et al. The immunological synapse balances T cell signaling and degradation Science 302 2003 1218-1222
28. S.J. Lee Y. Hori J.T. Groves M.L. Dustin A.K. Chakrabory Correlation of a dynamic model for immunological synapse formation with effector functions: Two pathways to synapse formation Trends Immunol. 23 2002 492-499
29. S.J. Lee Y. Hori J.T. Groves M.L. Dustin A.K. Chakrabory The synapse assembly model Trends Immunol. 23 2002 500-502
30. J.C. Leloup A. Goldbeter Chaos and birhythmicity in a model for circadian oscillations of the PER and TIM proteins in drosophila J. Theor. Biol. 198 1999 445-459
31. A. Leo B. Schraven Adaptors in lymphocyte signaling Curr. Opin. Immunol. 13 2001 307-316
32. G.M. Lord R.I. Lechler A.J. George A kinetic differentiation model for the action of altered TCR ligands Immunol. Today 20 1999 33-39
33. M.P. Loreto D.M. Berry C.J. McGlade Functional cooperation between c-Cbl and Src-like adaptor protein 2 in the negative regulation of T-cell receptor signaling Mol. Cell. Biol. 22 2002 4241-4255
34. T.W. McKeithan Kinetic proofreading in T-cell receptor signal transduction Proc. Natl. Acad. Sci. USA 92 1995 5042-5046
35. P.K.A. Mongini C.A. Blessinger J.P. Dalton Affinity requirements for induction of sequential phases of human B cell activation by membrane IgM-cross-linking ligands J. Immunol. 146 1991 1791-1800
36. D.L. Mueller Tuning the immune system: Competing positive and negative feedback loops Nat. Immunol. 4 2003 210-211
37. T. Mustelin R.T. Abraham C.E. Rudd A. Alonso J.J. Merlo Protein tyrosine phosphorylation in T cell signaling Front Biosci. 7 2002 d918-d969
38. M. Naramura I. Jang H. Kole F. Huang D. Haines H. Gu c-Cbl and Cbl-b regulate T cell responsiveness by promoting ligand-induced TCR down-modulation Nat. Immunol. 3 2002 1192-1199
39. P.S. Ohashi T-cell signaling and autoimmunity: Molecular mechanisms of disease Nat. Rev. Immunol. 2 2002 427-438
40. M.W. Olszowy P.L. Leuchtmann A. Veillette Comparison of p56lck and p59fyn protein expression in thymocyte subsets, peripheral T cells, NK cells, and lymphoid cell lines J. Immunol. 155 1995 4236-4240
41. E.A. Ottinger M.C. Botfield S.E. Shoelson Tandem SH2 domains confer high specificity in tyrosine kinase signaling J. Biol. Chem. 273 1998 729-735
42. M. Pelosi V.D. Bartolo V. Mounier D. Mege J.M. Pascussi E. Dufour et al. Tyrosine 319 in the interdomain B of ZAP-70 is a binding site for the Src homology 2 domain of Lck J. Biol. Chem. 274 1999 14229-14237
43. J.D. Rabinowitz C. Beeson D.S. Lyons M.M. Davis H.M. McConnell Kinetic discrimination in T-cell activation Proc. Natl. Acad. Sci. USA 93 1996 1401-1405
44. A.E. Schade A.D. Levine Phosphatases in concert with kinases set the gain for signal transduction through the T cell receptor Mol. Immunol. 40 2003 531-537
45. B. Schoeberl C. Eichler-Jonsson E.D. Gilles G. Muller Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors Nat. Biotechnol. 20 2002 370-375
46. 2+ responses in antigen-stimulated RBL-2H3 cells Am. J. Physiol. Cell. Physiol. 270 1996 939-952
47. E. Sontag Structure and stability of certain chemical networks and applications to the kinetic proofreading model of T-cell receptor signal transduction IEEE Trans. Automat. Control 46 2001 1028-1047
48. J. Sousa J. Carneiro A mathematical analysis of TCR serial triggering and down-regulation Eur. J. Immunol. 30 2000 3219-3227
49. I. Stefanova B. Hemmer M. Vergelli R. Martin W.E. Biddison R.N. Germain TCR ligand discrimination is enforced by competing Erk positive and SHP-1 negative feedback pathways Nat. Immunol. 4 2003 248-254
50. J.J. Tyson C.I. Hong C.D. Thron B. Novak A simple model of circadian rhythms based on dimerization and proteolysis of PER and TIM Biophys. J. 77 1999 2411-2417
51. J.J. Tyson B. Novak Regulation of the eukaryotic cell cycle: molecular antagonism, hysteresis, and irreversible transitions J. Theor. Biol. 210 2001 249-263
52. A. Veillette S. Latour D. Davidson Negative regulation of immunoreceptor signaling Annu. Rev. Immunol. 20 2002 669-707
53. C. Wofsy D. Coombs B. Goldstein Calculations show substantial serial engagement of T cell receptors Biophys. J. 80 2001 606-612