This work applies the HEOM method to understand the large kinetic isotope effect (KIE) in the hydrogen transfer reaction in soybean lipoxygenase (SLO) and to test the validity of several approximate theories in accounting for quantum effects in reaction rate.• Yan, Y.; Song, L.; Shi, Q. Understanding the free energy barrier and multiple time scale dynamics of charge separation in organic photovoltaic cells. J. Chem. Phys. 2018, 148, 084109. 3 This work employs the HEOM method to investigate the free energy barrier and real time dynamics for free charge generation in organic photovoltaic (OPV) cells. • Dan, X.; Shi, Q. Theoretical study of nonadiabatic hydrogen atom scattering dynamics on metal surfaces using the hierarchical equations of motion method. J. Chem. Phys. 2023, 159, 044101. 4 The HEOM method is applied to simulate hydrogen atom scattering on the Au(111) surface to understand the nonadiabatic nature of the atom-surface scattering dynamics.