Paper Citing NAMD - Abstract
Madina, D.; Ikegami, T.
Cellular dynamics in a 3D molecular dynamics system with chemistry
Artificial Life IX, 461-465, 2004
We present a three-dimensional model of the formation of simple protocellular structures. The model is based on an earlier lattice artificial chemistry due to Ono and Ikegami which consisted of a primitive metabolic system built on an artificial chemistry. This model computed the interactions of simple amphiphilic molecules which organized into membrane-like structures. The current model, however, treats space as continuous rather than a lattice. Moreover, although forces between atoms are computed in a more realistic manner, an adaptive method of computing intermolecular forces allows for efficient computation.
