Simulating a burnt-bridges DNA motor with a coarse-grained DNA model. - Petr Sulc; Thomas E. Ouldridge; Flavio Romano; Jonathan P. K. Doye; Ard A. Louis (Nat. Comput., 2014)

Chemical Boltzmann Machines. - William Poole; Andrés Ortiz-Muñoz; Abhishek Behera; Nick S. Jones; Thomas E. Ouldridge; Erik Winfree; Manoj Gopalkrishnan (DNA, 2017)

The importance of thermodynamics for molecular systems, and the importance of molecular systems for thermodynamics. - Thomas E. Ouldridge (Nat. Comput., 2018)

Implementing Non-Equilibrium Networks with Active Circuits of Duplex Catalysts. - Antti Lankinen; Ismael Mullor Ruiz; Thomas E. Ouldridge (DNA, 2020)

Optimizing enzymatic catalysts for rapid turnover of substrates with low enzyme sequestration. - Abhishek Deshpande; Thomas E. Ouldridge (Biol. Cybern., 2020)

Simulation of reversible molecular mechanical logic gates and circuits. - Ian Seet; Thomas E. Ouldridge; Jonathan P. K. Doye (CoRR, 2022)

Detailed Balanced Chemical Reaction Networks as Generalized Boltzmann Machines. - William Poole; Thomas E. Ouldridge; Manoj Gopalkrishnan; Erik Winfree (CoRR, 2022)

Autonomous Learning of Generative Models with Chemical Reaction Network Ensembles. - William Poole; Thomas E. Ouldridge; Manoj Gopalkrishnan (CoRR, 2023)

Is stochastic thermodynamics the key to understanding the energy costs of computation? - David H. Wolpert; Jan Korbel; Christopher Lynn; Farita Tasnim; Joshua A. Grochow; Gülce Kardes; James B. Aimone; Vijay Balasubramanian; Eric De Giuli; David Doty; Nahuel Freitas; Matteo Marsili; et al. (CoRR, 2023)

Information propagation in far-from-equilibrium molecular templating networks is optimised by pseudo-equilibrium systems with negligible dissipation. - Benjamin Qureshi; Jenny M. Poulton; Thomas E. Ouldridge (CoRR, 2024)

Editorial for the special issue on DNA computing and molecular programming. - Thomas E. Ouldridge; Shelley F. J. Wickham (Nat. Comput., 2024)