Barbra D. Ferrell

This study shows that a single amino acid substitution in phage T7's DNA polymerase I significantly affects infection dynamics in the T7-E. coli system.

The paper examines the distribution of ribonucleotide reductase (RNR) genes in marine viruses and links their patterns to ocean biogeochemistry.

This paper extends protein language models to a viral genomic scale using sparse attention, improving embeddings for long-range interprotein interactions.

The paper isolates and compares 16 bacteriophages targeting Bradyrhizobium spp., revealing host species-dependent diversity and identifying three new phage species.

This study fine-tunes pre-trained protein language models on viral protein sequences to improve their performance on downstream tasks and representation quality.

PASV automates validation and partitioning of protein-coding sequences using conserved residues, achieving high accuracy in classifying RNR, AOX, and PTOX sequences.

The paper introduces a method to speed up protein sequence homology searches with minimal loss of sensitivity and specificity by using hierarchical clustering of reference databases.