498 citations · 3.5k across the 66 of their papers we have counts for
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Recurrent neural chemical reaction networks trained to switch dynamical behaviours through learned bifurcations
Alexander Dack, Tomislav Plesa, Thomas E. Ouldridge
Both natural and synthetic chemical systems not only exhibit a range of non-trivial dynamics, but also transition between qualitatively different dynamical behaviours as environmen…
Recurrent neural chemical reaction networks that approximate arbitrary dynamics
Alexander Dack, Benjamin Qureshi, Thomas E. Ouldridge +1
Many important phenomena in biochemistry and biology exploit dynamical features such as multi-stability, oscillations, and chaos. Construction of novel chemical systems with such r…
Autonomous Learning of Generative Models with Chemical Reaction Network Ensembles
William Poole, Thomas E. Ouldridge, Manoj Gopalkrishnan
Can a micron sized sack of interacting molecules autonomously learn an internal model of a complex and fluctuating environment? We draw insights from control theory, machine learni…
Detailed Balanced Chemical Reaction Networks as Generalized Boltzmann Machines
William Poole, Thomas Ouldridge, Manoj Gopalkrishnan +1
Can a micron sized sack of interacting molecules understand, and adapt to a constantly-fluctuating environment? Cellular life provides an existence proof in the affirmative, but th…
Integral feedback in synthetic biology: Negative-equilibrium catastrophe
Tomislav Plesa, Alex Dack, Thomas E. Ouldridge
A central goal of synthetic biology is the design of molecular controllers that can manipulate the dynamics of intracellular networks in a stable and accurate manner. To address th…
Implementing Non-Equilibrium Networks with Active Circuits of Duplex Catalysts
Antti Lankinen, Ismael Mullor Ruiz, Thomas E. Ouldridge
DNA strand displacement (DSD) reactions have been used to construct chemical reaction networks in which species act catalytically at the level of the overall stoichiometry of react…