Francesco Oteri

Multi-dimensional optimization of a lysin towards a ribolysin against life-threatening S. aureus infections: Fc-LysM-CHAP and its strong synergy with standard of care antibiotics

This paper develops an Fc-fused lysin, Fc-LysM-CHAP, optimized for improved pharmacokinetics and synergy with antibiotics against S. aureus infections.

Designing AI-programmable therapeutics with the EDEN family of foundation models

This paper introduces the EDEN family of foundation models for AI-programmable therapeutic design, demonstrating their ability to generate functional gene insertions, antibiotic peptides, and synthetic microbiomes.

The Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics

The paper introduces the Nucleotide Transformer, a foundation model for genomics, showing it can predict molecular phenotypes from DNA sequences with transfer learning across tasks and organisms.

Phylogenetic reconstruction based on synteny block and gene adjacencies

PhyChro reconstructs phylogenetic trees using synteny breakpoints and gene adjacencies, achieving high accuracy and speed on vertebrate and yeast genomes.