Bolhuis, P. G. (2008). Rare events via multiple reaction channels sampled by path replica exchange. Journal of Chemical Physics, 129(11), 114108. https://doi.org/10.1063/1.2976011
Charbonneau, P., Das, C., & Frenkel, D. (2008). Dynamical heterogeneity in a glass-forming ideal gas. Physical Review E, 78(1), 011505. https://doi.org/10.1103/PhysRevE.78.011505
Juraszek, J., & Bolhuis, P. G. (2008). Rate constant and reaction coordinate of Trp-cage folding in explicit water. Biophysical Journal, 95(9), 4246-4257. https://doi.org/10.1529/biophysj.108.136267
Huisman, B. A. H., Bolhuis, P. G., & Fasolino, A. (2008). Phase transition to bundles of flexible supramolecular polymers. Physical Review Letters, 100(18), 188301. https://doi.org/10.1103/PhysRevLett.100.188301
Rotenberg, B., Pagonabarraga, I., & Frenkel, D. (2008). Dispersion of charged tracers in charged porous media. Europhysics Letters, 83(3), 34004. https://doi.org/10.1209/0295-5075/83/34004
Fomin, Y. D., Gribova, N. V., Ryzhov, V. N., Stishov, S. M., & Frenkel, D. (2008). Quasibinary amorphous phase in a three-dimensional system of particles with repulsive-shoulder interactions. Journal of Chemical Physics, 129(6), 064512. https://doi.org/10.1063/1.2965880
Coluzza, I., De Simone, A., Fraternali, F., & Frenkel, D. (2008). Multi-scale simulations provide supporting evidence for the hypothesis of intramolecular protein translocation in GroEL/GroES complexes. PLoS Computational Biology, 4(2), Article e1000006. https://doi.org/10.1371/journal.pcbi.1000006
de Meyer, F. J. M., Venturoli, M., & Smit, B. (2008). Molecular simulations of lipid-mediated protein-protein interactions. Biophysical Journal, 95(4), 1851-1865. https://doi.org/10.1529/biophysj.107.124164
Juraszek, J. (2008). Proteins in action : simulations of conformational changes in small proteins. [Thesis, fully internal, Universiteit van Amsterdam].
Bozorgui, B. (2008). Computational methods to study strongly-binding polymer-colloid systems. [Thesis, externally prepared, Universiteit van Amsterdam].