Ali R. Zomorrodi

BiomeGPT is a transformer-based foundation model pretrained on human gut metagenomes to predict host health status and reveal microbial signatures linked to diseases.

The paper constructs personalized genome-scale models of sIEC metabolism in CeD to identify metabolic dysfunctions and potential therapeutic drugs.

This study uses in silico dietary interventions to evaluate the impact of 12 diets on metabolic syndrome biomarkers, revealing gender-specific and organ-specific metabolic responses.

The paper optimizes the production of a non-standard amino acid in E. coli by combining computational modeling and experimental validation of metabolic interventions.

The paper uses computational models to infer ecological interactions between microbes based on metabolic pathways and evolutionary game theory, finding general patterns and deviations in amino acid exchanges.