Nicholas F. Parrish

Comprehensive identification of potentially functional genes for transposon mobility in the C. elegans genome

The paper identifies potentially functional transposon-mobility genes in the C. elegans genome, finding that only a limited number of transposons are autonomously mobile.

Mobile elements in human population-specific genome and phenotype divergence

The paper develops a tool to genotype mobile element variants (MEVs) using short-read data and identifies population-specific MEs linked to disease and gene regulation.

De novo virus inference and host prediction from metagenome using CRISPR spacers

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.

Virus-derived variation in diverse human genomes

The paper develops computational tools to study virus-derived structural variants in human genomes, identifying new somatic and heritable variants from retroviruses and uncovering their potential impact on gene expression and genetic diversity.

Endogenous retrovirus rewired the gene regulatory network shared between primordial germ cells and naïve pluripotent cells in hominoids

This study identifies LTR5_Hs, a hominoid-specific ERV, as rewiring the gene regulatory network shared between primordial germ cells and naive pluripotent cells through enhancer activity.

Endogenous retroviruses drive species-specific germline transcriptomes in mammals

This study identifies endogenous retroviruses as drivers of species-specific germline transcriptomes in mammals, particularly through their role in gene activation and enhancer function in spermatogenesis.

Endogenization and excision of human herpesvirus 6 in human genomes

The paper analyzes HHV-6 integration in human genomes, identifies co-evolution with chr22q, and reports evidence of in vivo excision and reactivation.