3 papers
q-bio.GN2026
Screening of Biosecurity Features in Metagenomic Data with Evo 2 Probes
Jeremy Guntoro, Alexander Dack, Dylan Danno +3
Genomic foundation models such as Evo 2 learn rich sequence representations, but their value for biosecurity screening is largely unexplored. We ask how much biosecurity-relevant s…
q-bio.MN2026
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…
q-bio.MN2021
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…