Adsorption of proteins onto charged surfaces: A Monte Carlo approach with explicit ions. - André H. Juffer; P. Argos; J. de Vlieg (J. Comput. Chem., 1996)

A flexible triangulation method to describe the solvent-accessible surface of biopolymers. - André H. Juffer; Hans J. Vogel (J. Comput. Aided Mol. Des., 1998)

Calculation of affinities of peptides for proteins. - Serena Donnini; André H. Juffer (J. Comput. Chem., 2004)

Incorporating the effect of ionic strength in free energy calculations using explicit ions. - Serena Donnini; Alan E. Mark; André H. Juffer; Alessandra Villa (J. Comput. Chem., 2005)

A boundary element formulation of protein electrostatics with explicit ions. - Weidong Xin; André H. Juffer (J. Comput. Phys., 2007)

Comparison of non-sequential sets of protein residues. - Leonardo D. Garma; André H. Juffer (Comput. Biol. Chem., 2016)

Theoretical Investigations of a point mutation affecting H5 Hemagglutinin's receptor binding preference. - Quoc Bao Ngo; André H. Juffer (Comput. Biol. Chem., 2024)

Raman Spectra of Amino Acids and Peptides from Machine Learning Polarizabilities. - Ethan Berger; Juha Niemelä; Outi Lampela; André H. Juffer; Hannu-Pekka Komsa (J. Chem. Inf. Model., 2024)

Insights into the behaviour of phosphorylated DNA breaks from molecular dynamic simulations. - Li Zhang; Outi Lampela; Lari Lehtiö; André H. Juffer (Comput. Biol. Chem., 2025)