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Waldauer, S. A., Hassan, S., Paoli, B., Donaldson, P. M., Pfister, R., Hamm, P., … Pellarin, R. (2012). Photocontrol of reversible amyloid formation with a minimal-design peptide. The Journal of Physical Chemistry B, 116(30), 8961-8973. https://doi.org/10.1021/jp305311z (Original work published)

Zheng, W., Qi, B., Rohrdanz, M. A., Caflisch, A., Dinner, A. R., & Clementi, C. (2011). Delineation of folding pathways of a β-sheet miniprotein. The Journal of Physical Chemistry B, 115(44), 13065-13074. https://doi.org/10.1021/jp2076935 (Original work published)

Mishra, S., & Caflisch, A. (2011). Dynamics in the active site of β-secretase: A network analysis of atomistic simulations. Biochemistry, 50(43), 9328-9339. https://doi.org/10.1021/bi2011948 (Original work published)

Seeber, M., Felline, A., Raimondi, F., Muff, S., Friedman, R., Rao, F., … Fanelli, F. (2011). Wordom: A user-friendly program for the analysis of molecular structures, trajectories, and free energy surfaces. Journal of Computational Chemistry, 32(6), 1183-1194. https://doi.org/10.1002/jcc.21688 (Original work published)

Schuetz, P., Wuttke, R., Schuler, B., & Caflisch, A. (2010). Free energy surfaces from single-distance information. The Journal of Physical Chemistry B, 114(46), 15227-15235. https://doi.org/10.1021/jp1053698 (Original work published)

Qi, B., Muff, S., Caflisch, A., & Dinner, A. R. (2010). Extracting physically intuitive reaction coordinates from transition networks of a beta-sheet miniprotein. The Journal of Physical Chemistry B, 114(20), 6979-6989. https://doi.org/10.1021/jp101476g (Original work published)

Backus, E. H. G., Bloem, R., Donaldson, P. M., Ihalainen, J. A., Pfister, R., Paoli, B., … Hamm, P. (2010). 2D-IR study of a photoswitchable isotope-labeled alpha-helix. The Journal of Physical Chemistry B, 114(10), 3735-3740. https://doi.org/10.1021/jp911849n (Original work published)

Paoli, B., Pellarin, R., & Caflisch, A. (2010). Slow folding of cross-linked alpha-helical peptides due to steric hindrance. The Journal of Physical Chemistry B, 114(5), 2023-2027. https://doi.org/10.1021/jp910216j (Original work published)

Brooks, B. R., Brooks III, C. L., Mackerell, A. D., Nilsson, L., Petrella, R. J., Roux, B., … Karplus, M. (2009). CHARMM: The biomolecular simulation program. Journal of Computational Chemistry, 30(10), 1545-1614. https://doi.org/10.1002/jcc.21287 (Original work published)