Molecular dynamics simulation of thymine glycol-lesioned DNA reveals specific hydration at the lesion. - Miroslav Pinak (J. Comput. Chem., 2001)

Electrostatic energy analysis of 8-oxoguanine DNA lesion–molecular dynamics study. - Miroslav Pinak (Comput. Biol. Chem., 2003)

8-oxoguanine lesioned B-DNA molecule complexed with repair enzyme hOGG1: A molecular dynamics study. - Miroslav Pinak (J. Comput. Chem., 2003)

Molecular dynamics simulation of clustered DNA damage sites containing 8-oxoguanine and abasic site. - Hirofumi Fujimoto; Miroslav Pinak; Toshiyuki Nemoto; Peter O'Neill; Etsuo Kume; Kimiaki Saito; Hideaki Maekawa (J. Comput. Chem., 2005)

DNA strand break: Structural and electrostatic properties studied by molecular dynamics simulation. - Juraj Kotulic Bunta; Aatto Laaksonen; Miroslav Pinak; Toshiyuki Nemoto (Comput. Biol. Chem., 2006)

A possible overestimation of the effect of acetylation on lysine residues in KQ mutant analysis. - Hirofumi Fujimoto; Mariko Higuchi; Manabu Koike; Hirotaka Ode; Miroslav Pinak; Juraj Kotulic Bunta; Toshiyuki Nemoto; Takashi Sakudoh; Naoko Honda; Hideaki Maekawa; Kimiaki Saito; Kozo Tsuchida (J. Comput. Chem., 2012)