Rachel A. Johnston

Alignment-free pan-k-mer profiles track minimap2 similarity (whole-chromosome r^2 0.959-0.968), profile 605 vertebrate genomes in about a day on 40 cores, and nominate trait-linked loci across plants and animals.

The paper characterizes viral diversity in febrile individuals in Madagascar using metagenomics, identifying both known and emerging viruses and highlighting associations with age and malaria.

This study uses untargeted sequencing to analyze population genetics and pathogen surveillance in timber rattlesnakes, finding genetic distinctness and a color variation locus linked to ALDH4A1.

The paper examines DNA methylation changes linked to early life adversity in the FFCWS cohort, finding specific, functional genomic regions associated with mental health disorders.

This study identifies DNA methylation signatures in wild baboons linked to early life adversity, showing exposure-dependent effects and functional relevance of methylation changes.

The paper uses mSTARR-seq to show DNA methylation interacts with environmental factors like IFNA and influenza virus in human macrophages, but not for early life adversity sites.

This study finds that high-ranking male baboons show accelerated epigenetic aging, suggesting a trade-off between reproductive success and lifespan.

The paper develops mSTARR-seq to quantify DNA methylation effects on regulatory elements, identifies MD regulatory elements, and predicts methylation-gene expression correlations.