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Publications: 2002
Theoretical Biology / Bioinformatics Group, Utrecht University
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Beltman J.B., Borghans J.A.M. & De Boer R.J. (2002).
- Major histocompatibility complex: Polymorphism from coevolution.
In: Dieckmann U., Metz H., Sabelis M. & Sigmund K., eds., Adaptive Dynamics of Infectious Diseases. In Pursuit of Virulence
Management, vol. 2 of Cambridge Studies in Adaptive Dynamics,
pp. 185-197. Cambridge University Press, Cambridge, U.K.
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Bernus O., Van Eyck B., Verschelde H. & Panfilov A.V. ( 2002a).
- Transition from ventricular fibrillation to ventricular tachycardia:
a simulation study on the role of Ca(2+)-channel blockers in human
ventricular tissue.
Phys. Med. Biol., 47: 4167-4179.
MEDLINE.
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Bernus O., Verschelde H. & Panfilov A.V. (2002b).
- Modified ionic models of cardiac tissue for efficient large scale
computations.
Phys. Med. Biol., 47: 1947-1959.
MEDLINE.
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Bernus O., Wilders R., Zemlin C.W., Verschelde H. & Panfilov A.V. ( 2002c).
- A computationally efficient electrophysiological model of human
ventricular cells.
Am. J. Physiol. Heart Circ. Physiol., 282:
H2296-H2308.
MEDLINE.
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Bonhoeffer S., Barbour A.D. & De Boer R.J. (2002).
- Procedures for reliable estimation of viral fitness from time-series
data.
Proc. R. Soc. Lond. B. Biol. Sci., 269: 1887-1893.
MEDLINE.
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Borghans J.A. & De Boer R.J. (2002).
- Memorizing innate instructions requires a sufficiently specific
adaptive immune system.
Int. Immunol., 14: 525-532.
MEDLINE.
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Cohen Stuart J., Hamann D., Borleffs J., Roos M., Miedema F., Boucher C.
& De Boer R. (2002).
- Reconstitution of naive T cells during antiretroviral treatment of
HIV-infected adults is dependent on age.
AIDS, 16: 2263-2266.
MEDLINE.
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De Boer R.J. (2002).
- Mathematical models of human CD4+ T-cell population kinetics.
Neth. J. Med., 60S: 17-26.
MEDLINE.
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Groenenboom M.A.C. & Hogeweg P. (2002).
- Space and the persistence of male-killing endosymbionts in insect
populations.
Proc. R. Soc. Lond. B. Biol. Sci., 269: 2509-2518.
MEDLINE.
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Hogeweg P. (2002a).
- Computing an organism: on the interface between informatic and
dynamic processes.
Biosystems, 64: 97-109.
MEDLINE.
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Hogeweg P. (2002b).
- Multilevel evolution: The fate of duplicated genes.
Z. Phys. Chem., 216: 77-90.
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Hogeweg P. (2002c).
- Multilevel processes in evolution and development: computational
models and biological insights.
In: Lässig M. & Valleriani A., eds., Biological Evolution
and Statistical Physics, Springer lecture notes in physics 585, pp.
217-239. Springer Verlag.
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Jensen L.J., Gupta R., Blom N., Devos D., Tamames J., Kesmir C., Nielsen
H., Staerfeldt H.H., Rapacki K., Workman C., Andersen C.A., Knudsen S., Krogh
A., Valencia A. & Brunak S. (2002).
- Prediction of human protein function from post-translational
modifications and localization features.
J Mol Biol., 319: 1257-1265.
MEDLINE.
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Kesmir C., Nussbaum A.K., Schild H., Detours V. & Brunak S. ( 2002).
- Prediction of proteasome cleavage motifs by neural networks.
Protein Eng., 15: 287-296.
MEDLINE.
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Lund O., Nielsen M., Kesmir C., Christensen J.K., Lundegaard C., Worning
P. & Brunak S. (2002).
- Web-based Tools for Vaccine Design.
In: Korber B.T., Brander C., Haynes B.F., Koup R., Kuiken C., Moore
J.P., Walker B.D. & Watkins D., eds., HIV Molecular Immunology
2002, pp. 45-51. Theoretical Biology and Biophysics Group, Los Alamos
National Laboratory, Los Alamos, NM, LA-UR 03-5816.
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Marée A.F.M. & Hogeweg P. (2002).
- Modelling Dictyostelium discoideum morphogenesis: the
culmination.
Bull. Math. Biol., 64: 327-353.
MEDLINE.
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Panfilov A.V. (2002).
- Spiral breakup in an array of coupled cells: The role of the
intercellular conductance.
Phys. Rev. Lett., 88: 118101.
MEDLINE.
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Panfilov A.V. & Zemlin C.W. (2002).
- Wave propagation in an excitable medium with a negatively sloped
restitution curve.
Chaos, 12: 800-806.
MEDLINE.
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Rusakov A.V., Aliev A.A., Panfilov A.V. & Medvinskii A.B. (2002).
- Instability of a three-dimnsional linear vortex in a simple model of
a heterogeneous excitable medium.
Biofizika, 47: 111-115.
MEDLINE.
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Sørensen H.A., Sperotto M.M., Petersen M., Kesmir C., Radzikowski L.,
Jacobsen S. & Søndergaard I. (2002).
- Variety identification of wheat using mass spectrometry with neural
networks and the influence of mass spectra processing prior to neural network
analysis.
Rapid. Commun. Mass. Spectrom., 16: 1232-1237.
MEDLINE.
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Yusim K., Kesmir C., Gaschen B., Addo M.M., Altfeld M., Brunak S., Chigaev
A., Detours V. & Korber B.T. (2002).
- Clustering patterns of cytotoxic T-lymphocyte epitopes in human
immunodeficiency virus type 1 (HIV-1) proteins reveal imprints of immune
evasion on HIV-1 global variation.
J Virol., 76: 8757-8768.
MEDLINE.
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