B. W. Davies

Semantic search using protein large language models detects class II microcins in bacterial genomes

The paper uses protein large language models to detect class II microcins in bacterial genomes, finding embeddings outperform sequence-based methods like BLAST in identifying known and novel microcins.

Deep mutational scanning and machine learning uncover antimicrobial peptide features driving membrane selectivity

The paper uses deep mutational scanning and machine learning to identify sequence features in antimicrobial peptides that enhance bacterial membrane selectivity while reducing mammalian toxicity.

Export of diverse and bioactive peptides through a type I secretion system.

This study shows the microcin V type I secretion system can export a wide range of peptides, limited only by length, and functions in multiple Gram-negative bacteria.

Designing β-hairpin peptide macrocycles for antibiotic potential

The paper designs and screens a synthetic macrocyclic β-hairpin peptide library for antibiotic potential, identifying active peptides with unique structural and charge features.

A comprehensive co-expression network analysis in Vibrio cholerae

This paper constructs a gene co-expression network for Vibrio cholerae using RNA-sequencing data to identify novel gene interactions and improve functional annotations.