Zak Costello

Functional and structural characterization of a combination of pan-sarbecovirus antibodies with potent antiviral activity

This study identifies two broadly neutralizing sarbecovirus antibodies that resist viral evolution and show improved neutralization when combined.

Illuminating protein space with a programmable generative model

This paper introduces Chroma, a generative model for proteins that can sample novel structures and sequences, conditioned on desired properties and functions.

BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale

BayFlux quantifies metabolic fluxes and their uncertainty using Bayesian inference, showing genome-scale models reduce flux uncertainty compared to core models and improve knockout predictions.

Identification, characterization, and application of a highly sensitive lactam biosensor from Pseudomonas putida

The paper develops a highly sensitive biosensor for caprolactam and valerolactam from Pseudomonas putida, capable of detecting product titers above background at ~6 g/L.

Robust characterization of two distinct glutarate sensing transcription factors found in Pseudomonas putida L-lysine metabolism

The paper characterizes two glutarate-sensing transcription factors in Pseudomonas putida and develops biosensors to detect glutarate flux for metabolic engineering.