265 citations · 607 across the 18 of their papers we have counts for
24 papers · 1 filter
Thermodynamic inference from noisy single-molecule time series
Todd R. Gingrich, Oleg A. Igoshin, Anatoly B. Kolomeisky +1
Single-molecule or single-particle tracking measurements inherently yield noisy microscopic trajectories, often significantly constrained by the diffraction limit and by the finite…
Sensitivity Analysis in the Face of Rare Events
John Strahan, Todd R. Gingrich
Molecular motors and other complex nonequilibrium systems are controlled by large sets of design parameters, and optimizing those parameters requires computing sensitivities -- der…
Dissipation-Reliability Tradeoff for Stochastic CMOS Bits in Series
Cathryn P. Murphy, Schuyler B. Nicholson, Nahuel Freitas +2
Physical instantiations of a bit of information are subject to thermal noise that can trigger unintended bit-flip errors. Bits implemented with CMOS technology typically operate in…
It Takes Two to Make a Thing Go Right: Boosting Current in Coupled Motors
Geyao Gu, Drew Alvarez, John Strahan +3
Catalysis-driven synthetic molecular motors operate in a loose mechanochemical coupling regime, one in which a decomposition of a fuel molecule does not reliably produce a forward…
Chemical master equation parameter exploration using DMRG
John P. Zima, Schuyler B. Nicholson, Todd R. Gingrich
Well-mixed chemical reaction networks (CRNs) contain many distinct chemical species with copy numbers that fluctuate in correlated ways. While those correlations are typically moni…
From high-dimensional committors to reactive insights
Nils E. Strand, Schuyler B. Nicholson, Hadrien Vroylandt +1
Transition path theory (TPT) offers a powerful formalism for extracting the rate and mechanism of rare dynamical transitions between metastable states. Most applications of TPT eit…