Daniel Anderson

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 paper reprocesses SARS-CoV-2 genomic data to correct systematic errors in phylogenies using a novel assembly tool, resulting in a cleaner global tree of 4.47 million samples.

Amira detects AMR genes directly from long reads using gene-space de Bruijn graphs, achieving high recall and accuracy compared to assembly-based methods.

A uniformly processed set of 2,440,377 bacterial and archaeal genomes with search tools and annotations, plus an AI-mined peptide set yielding ATB20, active in a mouse skin infection model.