Luca Nishimura

ViroChart maps host responses from virome RNA-seq data to identify phenotypic profiles of viruses, revealing host response patterns in animal infections.

DIANA predicts metadata categories from ancient metagenomics data, achieving high accuracy in host, community type, and material classification.

The paper develops a host-response-based framework to detect viral infections by analyzing ISG expression in RNA-seq data from diverse species, revealing hidden infections missed by conventional methods.

This study identifies the non-spike R204P mutation in the SARS-CoV-2 Omicron XEC variant as a driver of increased inflammation and pathogenicity through NF-κB activation.

The paper develops a CRISPR-based method to infer viral sequences and predict hosts from metagenomic data, identifying numerous viral genomes and analyzing the evolution of a retroelement locus.