Anush Chiappino-Pepe

The paper shows recoded E. coli can escape faster due to tRNA base changes and introduces kill switches to prevent this.

This study uses synthetic genomes to investigate how synonymous codon recoding affects organismal fitness and develops a workflow to overcome lethal effects of codon swaps.

This work designs precise base editors with reduced bystander editing using guide RNA libraries and protein language models, improving safety and targeting efficiency.

The paper quantifies the relationship between compartmentalized NADPH dynamics and cancer cell growth rates using a composite index analysis and identifies key transporters involved in this relationship.

The paper improves a MAGE protocol to repair mutations in synthetic genome segments, enabling successful complementation of gene deletions in Escherichia coli.

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 demonstrates a genetic code reassignment strategy that makes cells resistant to viral infections and prevents horizontal gene transfer by mistranslating viral proteins and relying on synthetic codons.

The paper introduces a computational method to design genetic circuits that control the formation of multicellular shapes from a single cell in human cells.

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

TEX-FBA integrates gene expression, thermodynamics, and metabolomics data into genome-scale metabolic models to reduce flux solution space and improve consistency with experimental data.