Faruk Dube

This paper benchmarks virus identification tools on vaginal metagenomes, finding geNomad excels in overall classification, VIBRANT minimizes false positives, ViraLM detects short contigs and eukaryotic viruses, and VirSorter2 performs well on VLP-enriched assemblies.

PLAGUE improves plasmid detection accuracy by reducing false positives in short-read assemblies while maintaining sensitivity.

This study identifies tissue-specific gene co-expression networks and core genes in Parascaris univalens following ivermectin exposure, revealing differential transcriptional responses and potential resistance mechanisms.