. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii CHAPTER 1. OVERVIEW AND OBJECTIVES . . . . . . . . . . . . . . . . 1 Aim # 1: Establish new computational methods for protein dynamics . . . . . . . . 1 Subgoal # 1.1: Represent protein dynamics using weighted structure ensembles 1 Subgoal # 1.2: Improve existing coarse-grained models with multi-body potentials usi...

Kinematics and dynamics of cable-driven parallel robots are affected by the cables used as force and motion transmitting elements. Flexural rigidity of these cables is of major interest to better understand dynamics of these systems and to improve their accuracy. The approach for modeling spatial cable dynamics, as presented in this paper, is based on the modified rigid-finite element method us...

In an ensemble of laser-driven atoms involving strongly interacting Rydberg states, the excitation probability is usually strongly suppressed. In contrast, here we identify a regime in which the steadystate Rydberg excited fraction is enhanced by the interaction. This effect is associated with the build-up of many-body coherences, induced by coherent multi-photon excitations between collective ...

This paper discusses an approach for sensitivity analysis of multibody dynamics using spatial operators. The spatial operators are rooted in the function space approach to estimation theory developed in the decades that followed the introduction of the Kalman filter. The operators provide a mathematical framework for studying a wide range of analytical and computational problems associated with...

We present a review of quantum computation with neutral atom qubits. After an overview of architectural options and approaches to preparing large qubit arrays we examine Rydberg mediated gate protocols and fidelity for twoand multi-qubit interactions. Quantum simulation and Rydberg dressing are alternatives to circuit based quantum computing for exploring many body quantum dynamics. We review t...