Noushin Hadadi

NICEgame identifies and resolves metabolic gaps in genome-scale models by suggesting alternative reactions and genes, improving gene essentiality predictions in E. coli.

The paper integrates genome-scale metabolic modeling with transcriptomics and exometabolomics to predict bacterial metabolic responses and validate them experimentally in Pseudomonas veronii.

The paper identifies two distinct Acetobacteraceae clades in honey bees with diverging metabolic capabilities and ecological roles.

This paper introduces REMI, a method that integrates gene expression and metabolomic data into metabolic models to improve flux predictions and better reflect physiological states.

BridgIT assigns enzyme sequences to orphan and novel reactions by comparing reactive site structures, predicting sequences for 93% of reactions with three connecting bonds and nearly all with six.

This paper uses retrobiosynthesis to discover and evaluate novel biosynthetic pathways for producing five MEK precursors in E. coli.