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Publications: 2000

Theoretical Biology / Bioinformatics Group, Utrecht University

Cohen Stuart J.W., Hazebergh M.D., Hamann D., Otto S.A., Borleffs J.C., Miedema F., Boucher C.A. & De Boer R.J. (2000).
The dominant source of CD4+ and CD8+ T-cell activation in HIV infection is antigenic stimulation.
J. Acquir. Immune Defic. Syndr., 25: 203-211. MEDLINE. DownLoad PDF.

Hazenberg M.D., Cohen Stuart J.W., Otto S.A., Borleffs J.C., Boucher C.A., De Boer R.J., Miedema F. & Hamann D. ( 2000a).
T-cell division in human immunodeficiency virus (HIV)-1 infection is mainly due to immune activation: a longitudinal analysis in patients before and during highly active antiretroviral therapy (HAART).
Blood, 95: 249-255. MEDLINE. DownLoad PDF.

Hazenberg M.D., Otto S.A., Stuart J.W., Verschuren M.C., Borleffs J.C., Boucher C.A., Coutinho R.A., Lange J.M., De Wit T.F., Tsegaye A., Van Dongen J.J., Hamann D., De Boer R.J. & Miedema F. (2000b).
Increased cell division but not thymic dysfunction rapidly affects the T-cell receptor excision circle content of the naive T cell population in HIV-1 infection.
Nat. Med., 6: 1036-1042. MEDLINE. DownLoad PDF.

Hogeweg P. (2000a).
Evolving mechanisms of morphogenesis: on the interplay between differential adhesion and cell differentiation.
J. theor. Biol., 203: 317-333. MEDLINE. DownLoad PDF.

Hogeweg P. (2000b).
Shapes in the shadow: Evolutionary dynamics of morphogenesis.
Artif. Life, 6: 85-101. MEDLINE. DownLoad PDF.

Kesmir C., Borghans J.A.M. & De Boer R.J. ( 2000).
Diversity of human alpha beta T cell receptors.
Science, 288: 1135a. DownLoad PDF.

Lauemøller S., Kesmir C., Corbet S.L., Fomsgaard A., Holm A., Claesson M.H., Brunak S. & Buus S. (2000).
Identifying cytotoxic T cell epitopes from genomic and proteomic information: "The human MHC project.".
Rev. Immunogenet., 2(4): 477-491. MEDLINE. DownLoad PDF.

Marée A.F.M., Keulen W., Boucher C.A.B. & De Boer R.J. (2000).
Estimating relative fitness in viral competition experiments.
J. Virol., 74: 11067-11072. MEDLINE. DownLoad PDF.

Noest A.J. (2000).
Designing lymphocyte functional structure for optimal signal detection: Voilà, T cells.
J. theor. Biol., 207: 195-216. MEDLINE. DownLoad PDF.

Pagie L.W.P. & Hogeweg P. (2000a).
Individual- and population-based diversity in restriction-modification systems.
Bull. Math. Biol., 62: 759-774. MEDLINE. DownLoad PDF.

Pagie L.W.P. & Hogeweg P. (2000b).
Information integration and red queen dynamics in coevolutionary optimization.
Proceedings CEC 2000, pp. 797-806. DownLoad PDF.

Pagie L.W.P. & Hogeweg P. (2000c).
Optimization as side-effect of evolving allelopathic diversity.
vol. 1917 of Lecture Notes in Computer Science, pp. 797-806. Proceedings PPSN VI. DownLoad PDF.

Panfilov A.V., Müller S.C., Zykov V.Z. & Keener J.P. (2000).
Elimination of spiral waves in cardiac tissue by multiple electrical shocks.
Phys.Rev.E, 61: 4644-4647. MEDLINE. DownLoad PDF.

Rizzardi G.P., De Boer R.J., Hoover S., Tambussi G., Chapuis A., Halkic N., Bart P.A., Miller V., Staszewski S., Notermans D.W., Perrin L., Fox C.H., Lange J.M., Lazzarin A. & Pantaleo G. (2000).
Predicting the duration of antiviral treatment needed to suppress plasma HIV-1 RNA.
J. Clin. Invest., 105: 777-782. MEDLINE. DownLoad PDF.

Zuidema W.H. & Hogeweg P. (2000).
Selective advantages of syntactic language - a model study.
Proceedings of the 22nd Annual Meeting of the Cognitive Science Society. Lawrence Erlbaum Associates, Hillsdale, USA. DownLoad PDF.