1998

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

A71. Borghans J.A.M. and De Boer R.J. (1998a). Neonatal tolerance revisited by mathematical modelling. Scand. J. Immunol., 48: 283-285.

A72. Borghans J.A.M. and De Boer R.J. (1998b). Crossreactivity of the T-cell receptor. Immunol. Today, 19: 428-429.
MEDLINE. PDF-file

A73. Borghans J.A.M., De Boer R.J., Sercarz E. and Kumar V. (1998). T cell vaccination in experimental autoimmune encephalomyelitis: a mathematical model. J. Immunol., 161: 1087-1093.
MEDLINE. PDF-file

A74. Cohen Stuart J.W., Slieker W.A., Rijkers G.T., Noest A., Boucher C.A., Suur M.H., De Boer R.J., Geelen S.P., Scherpbier H.J., Hartwig N.G., Hooijkaas H., Roos M.T., De Graeff- Meeder B. and De Groot R. (1998). Early recovery of CD4+ T lymphocytes in children on highly active antiretroviral therapy. Dutch study group for children with HIV infections. AIDS , 12: 2155-2159.

A75. De Boer R.J., Boucher C.A. and Perelson A.S. (1998). Target cell availability and the successful suppression of HIV by hydroxyurea and didanosine. AIDS , 12: 1567-1570.

A76. De Boer R.J. and Perelson A.S. (1998). Target cell limited and immune control models of HIV infection: A comparison. J. theor. Biol., 190: 201-214.

A77. De Boer R.J. and Noest A.J. (1998). T cell renewal rates, telomerase, and telomere length shortening. J. Immunol., 160: 5832-5837.
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A78. van Doorn. G.S., A.J. Noest and P. Hogeweg (1998) Sympatric speciation and extinction driven by environment dependent sexual selection Proc. Royal Soc. B. 265:1915-1919

A79. Fleury S., De Boer R.J., Rizzardi G.P., Wolthers K.C., Otto S.A., Welbon C.C., Graziosi C., Knabenhans C., Soudeyns H., Bart P.A., Gallant S., Corpataux J.M., Gillet M., Meylan P., Schnyder P., Meuwly J.Y., Spreen W., Glauser M.P., Miedema F. and Pantaleo G. (1998). Limited CD4+ T-cell renewal in early HIV-1 infection: effect of highly active antiretroviral therapy. Nat. Med., 4: 794-801.

A81. Hogeweg, P. (1998) On searching generic properties in non-generic phenomena: an approach to bioinformatic theory formation. Artificial Life VI (e.s C. Adami, R.K Belew, H. Kitano and c.E. Taylor MIT press pp 285-294
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A82. Kesmir C. and De Boer R.J. (1998). How does cytopathicity affect the production of neutralizing antibody? Scand. J. Immunol., 48: 347-349

A83. Pagie, L. and P. Hogeweg (1998) Evolving adaptability due to coevolving targets. Evolutionary computation 5:401-418

A84. Pakker N.G., Notermans D.W., De Boer R.J., Roos M.T., De Wolf F., Hill A., Leonard J.M., Danner S.A., Miedema F. and Schellekens P.T. (1998). Biphasic kinetics of peripheral blood T cells after triple combination therapy in HIV-1 infection: a composite of redistribution and proliferation. Nat. Med., 4: 208-214.

A85 A.V.Panfilov,"Spiral breakup as a model of ventricular fibrillation" ,Chaos,1998,v.8,p.57-64.

A86. Savill, N.J. and P. Hogeweg (1998) Spatially induced speciation prevents extinction: the evolution of dipersal distance in oscillatory predator prey models Proc. Royal Soc. B 265:25-32

87. Takumi, K and P. Hogeweg (1998) Evolution of the immune repertoire with and without somatic DNA recombination. J. Theor Biol 192:308-317
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1997

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

A52. De Boer, R.J. and A.S. Perelson (1997) Competitive control of the self-renewing T cell repertoire. Int. Immunol. 9, 779-790.

A53. Goudsmit, J., De Ronde, A., De Rooij, E. and R.J. De Boer (1997) Broad spectrum of in vivo fitness of human immunodeficiency virus type 1 subpopulations differing at reverse transcriptase codons 41 and 215. J. Virol. 71, 4479-4484.

A54. Holden, A.V. and A.V. Panfilov (1997) Modelling propagation in excitable media. In: Panfilov, A.V. and A.V. Holden (eds.) Computational Biology of the Heart,.Wiley Press, pp. 65-100.

A55. Huisman, G. and R.J. De Boer (1997) A formal derivation of the “Beddington” functional response. J. theor. Biol. 185, 389-400.

A56. De Jong, M.D., Veenstra, J., Stilianakis, N.I., Schuurman, R., Lange, J.M., De Boer, R.J. and C.A. Boucher (1997) Host-parasite dynamics and outgrowth of virus containing a single K70R amino acid change in reverse transcriptase are responsible for the loss of human immunodeficiency virus type 1 RNA load suppression by zidovudine. Proc. Natl. Acad. Sci. USA 93, 5501-5506.

A57. De Jong, M.D., De Boer, R.J., De Wolf, F., Foudraine, N.A., Boucher, C.A., Goudsmit, J. and J.M. Lange (1997) Overshoot of HIV-1 viraemia after early discontinuation of antiretroviral treatment. AIDS 11, F79-F84.

A58. Keener, J.P. and A.V. Panfilov (1997) Front tracking methods for wave propagation in myocardium. In: Panfilov, A.V. and A.V. Holden, (eds.) Computational Biology of the Heart, Wiley Press, pp. 235-258.

A59. Marée, A.F.M. and A.V. Panfilov (1997) Spiral breakup in excitable tissue due to lateral instability. Phys. Rev. Lett. 78, 1819-1822.

A60. Noest, A.J., Takumi, K. and R.J. De Boer (1997) Pattern formation in B-cell immune networks: domains and dots in shape-space. Physica D 105, 285-306.

A61. Noest, A.J. (1997) Instability of the sexual continuum. Proc. Royal Soc. London B 264, 1389-1393.

A62. Van Oss, C., Panfilov, A.V. and P. Hogeweg (1997) Streams and spirals in a discrete model of Dictyostelium aggregation. In: Alt, A., Deutsch, A. and G. Dunn (eds.) Dynamics of Cell and Tissue Motion (vol. 1 of Mathematics and Biosciences in Interaction), Birkhauser Verlag, Basel, pp. 197-199.

A63. Pagie, L. and P. Hogeweg (1997) Evolutionary consequences of coevolving tarets. Evolutionary Computation 5, 401-418

A64. Panfilov, A.V. (1997) Modelling of re-entrant patterns in an anatomical model of the heart. In: Panfilov, A.V. and A.V. Holden (eds.) Computational Biology of the Heart, Wiley Press, pp. 259-276.

A65. Savill, N.J. and P. Hogeweg (1997a) Modelling morphogenesis: from single cells to crawling slugs. J. theor. Biol. 184, 229-235.
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A66. Savill, N.J. and P. Hogeweg (1997b) Evolutionary stagnation due to pattern-pattern interactions in a co-evolutionary predator-prey model. Artificial Life 3, 81-100.

A67. Savill, N.J., Rohani, P. and P. Hogeweg (1997c) Self-reinforcing spatial patterns enslave evolution in a host parasitoid system. J. theor. Biol. 188, 11-20.
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A68. Savill, N.J. and P. Hogeweg (1997d) A cellular automata approach for modelling cell-cell interactions. In: Alt, A., Deutsch, A. and G. Gunn (eds.) Dynamics of Cell and Tisue Motion (Vol. 1 of Mathematics and Biosciences in Interaction), Birkhauser Verlag, Basel, pp. 203-208.

A69. Stilianakis, N.I., Boucher, C.A., De Jong, M.D., Van Leeuwen, R., Schuurman, R. and R.J. De Boer (1997) Clinical data sets of human immunodeficiency virus type 1 reverse transcriptase-resistant mutants explained by a mathematical model. J. Virol. 71, 161-168.

1996

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

A42. Aliev, R.R. and A.V. Panfilov (1996) A simple two-variable model of cardiac excitation. Chaos, Solitons and Fractals 7, 293-301.

A43. Aliev, R.R. and A.V. Panfilov (1996) Modelling of heart excitation patterns caused by a local inhomogeneity. J. theor. Biol. 181, 33-40.

A44. De Boer, R.J., Boerlijst, M.C., Sulzer, B. and A.S. Perelson (1996) Crosslinking reconsidered. II A novel bell-shaped function for idiotypic interactions. Bull. Math. Biol. 58, 285-312.

A45. De Boer, R.J. and C.A.B. Boucher (1996) Anti-CD4 therapy for AIDS suggested by mathematical methods. Proc. Royal Soc. London B 263, 899-905.

A46. Borghans, J.A.M., De Boer, R.J. and L.A. Segel (1996) Extending the quasi-steady state approximation by changing variables. Bull. Math. Biol. 58, 43-63.

A47. Keener, J.P. and A.V. Panfilov (1996) A biophysical model for defibrillation of cardiac tissue. Biophys. J. 71, 1335-1345.

A48. Van Oss, C., Panfilov, A.V., Hogeweg, P., Siegert, F. and C.J. Weijer (1996) Spatial pattern formation during aggregation of the slime mould Dictyostelium discoideum. J. theor. Biol. 181, 203-213.
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A49. Panfilov, A.V. and P. Hogeweg (1996) Scroll break-up in a three-dimensional excitable media. Phys. Rev. E. 53(2), 1740-1743.

A50. Sulzer, B., De Boer, R.J. and A.S. Perelson (1996) Crosslinking reconsidered. I Binding and crosslinking fields and the cellular response. Biophys. J. 70, 1154-1168.

A51. Takumi, K. and R.J. De Boer (1996) Self assertion modeled as a network repertoire of multi-determinant antibodies. J. theor. Biol. 183, 55-66.

1995

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

A26. Aliev, R.R. and A.V. Panfilov (1995) Multiple responses at the boundaries of vulnerability window in the BZ reaction. Phys. Rev. E. 52(3), 2287-2293.

A27. De Boer, R.J. (1995) The evolution of polymorphic compatibility molecules. Mol. Biol. Evol. 12(3), 494-502.

A28. De Boer, R.J. and J.A.M. Borghans (1995) Theoretical models for T-cell vaccination. In: T cell vaccination and autoimmune disease: perspectives on clonetypic regulation and prospects for therapy. Zhang, J. and F. Raus, eds. R.G. Landes Comp., Austin, Texas Chapter 5, 61-82.

A29. De Boer, R.J. and A.S. Perelson (1995) Towards a general function describing T-cell proliferation. J. theor. Biol. 175, 567-576.

A30. Boerlijst, M.C. and P. Hogeweg (1995) Attractors and spatial patterns in hypercycles with negative interactions. J. theor. Biol. 176, 199-210.
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A31. Boerlijst, M.C. and P. Hogeweg (1995) Spatial gradients enhance persistence of hypercycles. Physica D 88, 29-39.
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A32. Borghans, J.A.M. and R.J. De Boer (1995) A minimal model for T-cell vaccination. Proc. Royal Soc. London B 259, 173-179.

A33. Gray, R.A., Jalife, J. and A.V. Panfilov et al. (1995) Mechanisms of cardiac fibrillation. Science 270, 1222-1223.

A34. Gray, R.A., Jalife, J. and A.V. Panfilov et al. (1995) Nonstationary vortexlike re-entrant activity as a mechanism of polymorphic ventricular tachycardia in the isolated rabbit heart. Circulation 91, 2454-2469.

A35. Van der Laan, J.D. and P. Hogeweg (1995) Predator-prey coevolution: interactions among different time scales. Proc. Royal Soc. London B 259, 35-42.
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A36. Van der Laan, J.D., Lhotka, L. and P. Hogeweg (1995) Sequential predation; a multimodel study. J. theor. Biol. 174, 149-167.
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A37. Panfilov, A.V. and J.P. Keener (1995) Re-entry in an anatomical model of the heart. Chaos, Solitons and Fractals 5, 681-689.

A38. Panfilov, A.V. and J.P. Keener (1995) Dynamics of dissipative structures in excitable media, SIAM. J. Appl. Math. 55, 205-219.

A39. Panfilov, A.V. and J.P. Keener (1995) Re-entry in three-dimensional myocardium with twisted anisotropy. Physica D 84, 545-552.

A40. Panfilov, A.V. and P. Hogeweg (1995) Mechanisms of cardiac fibrillation. Science 270, 1223-1224.

A41. Scheffer, M. and R.J. De Boer (1995) Implications of spatial heterogeneity for the paradox of enrichment. Ecology 76, 2270-2277.

1994

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

A14. Agladze, K., Keener, J., Müller, S.C. and A. Panfilov (1994) Rotating spiral waves created by geometry. Science 264, 1746-1748.

A15. De Boer, R.J. and M.C. Boerlijst (1994) Virulence and diversity thresholds in AIDS. Proc. Nat. Acad. Sci. USA 94, 544-548.

A16. De Boer, R.J. and A.S. Perelson (1994) T cell repertoires and competitive exclusion. J. theor. Biol. 169, 375-390.

A17. Te Boekhorst, I.J.A. and P. Hogeweg (1994) Effects of tree size on travelband formation in orang utans: data analysis suggested by a model study. In: Brooks, R.A. and P. Maes (eds.) Artificial life IV, MIT Press, pp. 119-129.

A18. Te Boekhorst, I.J.A. and P. Hogeweg (1994) Selfstructuring in artificial “CHIMPS” offers new hypotheses for male grouping in chimpanzees. Behaviour 130, 229-252.

A19. Hogeweg, P. (1994) Multilevel evolution: replicators and the evolution of diversity. Physica D 75, 275-291.
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A20. Hogeweg, P. (1994) On the potential role of DNA in an RNA world: pattern generation and information accumulation in replicator systems. Ber. Bunsengesel Phys. Chem. 98, 1135-1139.
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A21. Huynen, M.A. and P. Hogeweg (1994) Pattern generation in molecular evolution: exploitation of the variation in RNA landscapes. J. Mol. Evol. 39, 71-79.

A22. Keener, J.P. and A.V. Panfilov (1994) Three-dimensional propagation in the heart: the effects of geometry and fiber orientation on propagation in myocardium. In: Zipes, D.P. and J. Jalife (eds.) Cardiac electrophysiology and arrhythmias. 2nd ed., 335-347.

A23. Merrill, S.J., De Boer, R.J. and A.S. Perelson (1994) Development of the T-cell repertoire: clone size distribution. Rocky Mt. J. Math. 24, 214-231.

A24. Vasiev, B.N., Panfilov, A.V. and R.N. Khramov (1994) Large pulsating waves in a one- dimensional excitable medium. Phys. Lett. A. 192, 227-232.

A25. Vasiev, B.N., Hogeweg, P. and A.V. Panfilov (1994) Simulation of Dictyostelium aggregation via reaction-diffusion model. Phys. Rev. Lett. 73, 3173-3176.
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1993

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

A1. De Boer, R.J., Kevrekidis, I.G. and A.S. Perelson (1993) Immune netwerk behavior I: from stationary states to limit cycle oscillations. Bull. Math. Biol. 55, 745-780.

A2. De Boer, R.J., Kevrekidis, I.G. and A.S. Perelson (1993) Immune network behavior II: from oscillations to chaos and stationary states. Bull. Math. Biol. 55, 781-816.

A3. De Boer, R.J. and A.S. Perelson (1993) How diverse should the immune system be? Proc. Royal Soc. London B 252, 171-175.

A4. De Boer, R.J., Neumann, A.U., Perelson, A.S., Segel, L.A. and G. Weisbuch (1993) Recent approaches to immune networks. In: Demongeot, J. and V. Capasso (eds.) Mathematics applied to biology and medicine. Wurz Publ. Ltd., pp. 243-261.

A5. Boerlijst, M.C., Lamers, M.C. and P. Hogeweg (1993) Evolutionary consequences of spiral waves in a host parasitoid system. Proc. Royal Soc. London B 253, 15-18.

A6. Huynen, M.A., Konings, D.A.M. and P. Hogeweg (1993) Multiple coding and the evolutionary properties of RNA secondary structure. J. theor. Biol. 165, 251-267.
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A7. Panfilov, A.V. and A.V. Holden (1993) Computer simulation of re-entry sources in myocardium in two and three dimensions. J. theor. Biol. 161, 271-285.

A8. Panfilov, A.V. and P. Hogeweg (1993) Spiral break-up in a modified FitzHugh Nagumo model. Phys. Lett. A. 176, 295-299.
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A9. Panfilov, A.V. and J.P. Keener (1993) Re-entry generation in anisotropic twisted myocardium. J. Cardiovasc. Electrophys. 4, 412-421.

A10. Panfilov, A.V. and J.P. Keener (1993) Effects of high frequency stimulation in excitable medium with obstacle. J. theor. Biol. 163, 439-448.

A11. Panfilov, A.V. and J.P. Keener (1993) Twisted scroll waves in heterogeneous excitable media. Int J. Bif. and Chaos 3, 445-450.

A12. Panfilov, A.V. and J.P. Keener (1993) Modelling reentry in a finite element model of the heart. J. Physiol. 467, 152.

A13. Perelson, A.S., Kirschner, D.E., Nelson, G.W. and R.J. De Boer (1993) The dynamics of HIV infection of CD4 T cells. Math. Biosciences 114, 81-125.

1991

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

Boerlijst M.C. & Hogeweg P. (1991a).

Self-structuring and selection.
In: Langton C.G., Taylor C., Farmer J.D. & Rasmussen S., eds., Artificial Life II, pp. 255-276. Addison-Wesley. DownLoad PDF.

Boerlijst M.C. & Hogeweg P. (1991b).

Spiral wave structure in pre-biotic evolution: Hypercycles stable against parasites.
Physica D, 48: 17-28. DownLoad PDF.

Hogeweg P. & Hesper B. (1991).

Evolution as pattern processing: Todo as substrate for evolution.
In: Meyer J. & Wilson S., eds., From Aninmals to Animats, pp. 492-497. MIT Press. DownLoad PDF.

1990

Papers after 1998 | 1998 | 1997 | 1996 | 1995 | 1994 | 1993 | 1991 | 1990

Hogeweg P. and B. Hesper (1990): Individual oriented modelling in Ecology. Mathl Comput Modelling 13(6) pp 83-90

Hogeweg, P. (1989) An adaptive, sefmodifying, non goal directed modelling methodology. In: Modelling and simulation methodology (M.S. Elzas, T.I. Oren and B.P,Zeigler, ed.). Elsevier Science Publ. B.V.., pp. 77-92.

Hogeweg, P. (1988) MIRROR beyond MIRROR, puddles of Life. In: Artificial Life (C. Langton, ed.). Addison Wesley Publ. Comp., pp. 297-315.

Hogeweg, P. and B. Hesper (1986) Knowledge seeking in variable structure models. In: Modelling and Simulation in the Artificial Intelligence Era (ed. Elzas, Oren and Klir) North Holland, pp. 227-243.

Hogeweg, P. and B. Hesper (1985) Socioinformatic processes, a MIRROR modelling methodology. J. Theor. Biol. 113, 311-330.

Hogeweg, P. and B. Hesper B. (1984) The alignment of sets of sequences and the construction of phyletic trees: an integrated method. J. Mo.l Evol. 20, 175-186.

Hogeweg, P. and B. Hesper (1983) The ontogeny of the interaction structure in BumbleBee colonies: a MIRROR model. Behav. Ecol. Sociobiol. 12, 271-283

Van de Honk, C. and P. Hogeweg (1981) The ontogeny of the social structure in an captive Bombus terrestris colony. Behav. Ecol. and Sociobiol. 9, 111-119.

Hogeweg, P. and B. Hesper (1979) Heterarchical selfstructuring simulation systems: concepts and applications in biology. In: Methodology in systems modelling and simulation. (Zeigler B.P., Klir, G.J., Oren, R.I. eds.) North Holland. pp. 221-231.

Hogeweg P. and Hesper B. (1978)Interactive intruction on population interactions Comp. Biol. and Med. 8, 319-327.4

Hogeweg P. (1978) Simulating the growth of cellular forms. in Frontiers of systems modelling, Simulation sept 1978:90-94

Hogeweg P. and Hesper B. (1974) A model study on biomorphological description Pattern Recognition 6:165-179