Eileen Li

De novo distillation of thermodynamic affinity from deep learning regulatory sequence models of in vivo protein-DNA binding

The paper introduces Affinity Distillation (AD), a method to extract thermodynamic affinities from deep learning models of in vivo TF binding, showing it outperforms motif-based methods in predicting sequence variation impacts.

Bayesian Modeling Reveals Ultrasensitivity Underlying Metabolic Compensation in the Cyanobacterial Circadian Clock

The paper uses Bayesian modeling to show that ultrasensitivity in KaiC phosphorylation, driven by differential KaiA binding to ATP/ADP states, enables metabolic compensation in the cyanobacterial circadian clock.