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Time-dependent Hamiltonian dynamics is derived for a curve (molecular strand) in $mathbb{R}^3$ that experiences both nonlocal (for example, electrostatic) and elastic interactions. The dynamical equations in the symmetry-reduced variables are written on the dual of the semidirect-product Lie algebra $so(3) circledS (mathbb{R}^3oplusmathbb{R}^3oplusmathbb{R}^3oplusmathbb{R}^3)$ with three 2-cocycles. We also demonstrate that the nonlocal interaction produces an interesting new term deriving from the coadjoint action of the Lie group SO(3) on its Lie algebra $so(3)$. The new filament equations are written in conservative form by using the corresponding coadjoint actions.
Euler-Poincare equations are derived for the dynamical folding of charged molecular strands (such as DNA) modeled as flexible continuous filamentary distributions of interacting rigid charge conformations. The new feature is that the equations of mot
The gradient-flow dynamics of an arbitrary geometric quantity is derived using a generalization of Darcys Law. We consider flows in both Lagrangian and Eulerian formulations. The Lagrangian formulation includes a dissipative modification of fluid mec
We discuss several models of the dynamics of interacting populations. The models are constructed by nonlinear differential equations and have two sets of parameters: growth rates and coefficients of interaction between populations. We assume that the
The emergence of ultra-fast X-ray free-electron lasers opens the possibility of imaging single molecules in the gas phase at atomic resolution. The main disadvantage of this imaging technique is the unknown orientation of the sample exposed to the X-
We suggest kinetic models of dissipation for an ensemble of interacting oriented particles, for example, moving magnetized particles. This is achieved by introducing a double bracket dissipation in kinetic equations using an oriented Poisson bracket,