Francesca Zappa

The paper introduces a deep learning framework to resolve mechanistic ambiguity in complex signaling networks by learning dynamic signatures from competing models.

This study identifies an allosteric mechanism in eIF2B that regulates the Integrated Stress Response by showing how eIF2-P binding inhibits eIF2B activity through latch-helix dislocation.

The paper identifies a third mode of IRE1 activation called TRES, triggered by reduced protein influx into the ER, leading to a distinct gene expression program to rebalance ER load.

The paper develops a theoretical model of the ISR using time-resolved proteomics data to show molecular timers and a translational cliff limit ISR activation.

This study uses optogenetic control of the ISR to show proportional encoding of stress inputs and reveals a stress memory landscape through an ODE model.