This thesis establishes a multifaceted extension of the deterministic control framework, a workhorse of nonequilibrium statistical mechanics, to stochastic, discrete, and autonomous control mechanisms. This facilitates the application of ideas from stochastic thermodynamics to the understanding of molecular machines in nanotechnology and in living things. It also gives a scale on which to evaluate the nonequilibrium energetic efficiency of molecular machines, guidelines for designing effective synthetic machines, and a perspective on the engineering principles that govern efficient microscopic energy transduction far from equilibrium. The thesis also documents the author’s design, analysis, and interpretation of the first experimental demonstration of the utility of this generally applicable method for designing energetically-efficient control in biomolecules. Protocols designed using this framework systematically reduced dissipation, compared to naive protocols, across a wide range of experimental unfolding speeds and wildly different DNA hairpins.weiterlesen