Absorbing boundary conditions are presented for three-dimensional time-dependent Schr\"odinger-type of equations as a means to reduce the cost of the quantum-mechanical calculations. The boundary condition is first derived from a semi-discrete approximation of the Schr\"odinger equation with the advantage that the resulting formulas are automatically compatible with the finite-difference scheme and no further discretization is needed in space. The absorbing boundary condition is expressed as a

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... iscrete Dirichlet-to-Neumann (DtN) map, which can be further approximated in time by using rational approximations of the Laplace transform to enable a more efficient implementation. This approach can be applied to domains with arbitrary geometry. The stability of the zeroth order and first order absorbing boundary conditions is proved. We tested the boundary conditions on benchmark problems. The effectiveness is further verified by a time-dependent Hartree-Fock model with Skyrme interactions. The accuracy in terms of energy and nucleon density is examined as well.