Nicole M. Foley

The paper estimates the koala mutation rate and uses it to reconstruct population history, revealing a decline before human arrival and genetic splits.

The paper reconstructs ancestral recombination maps in placental mammals and finds that conserved low-recombination regions are under stronger purifying selection than conserved high-recombination regions.

The paper identifies proteins and regulatory elements associated with vocal learning by analyzing bat neural activity and epigenomic data.

TOGA integrates gene annotation and orthology inference across hundreds of genomes, improving ortholog detection and creating large comparative gene resources.

A machine learning approach identifies enhancer-phenotype associations across mammals, revealing links to brain size and behavior evolution.

The paper curates TE content in 248 mammalian genomes, finding trends in recent TE accumulation and associations with dietary habits.

A 240-species placental mammal alignment resolves constraint to single bases, estimating at least 10.7% of the human genome is constrained, with 48.5% of constrained bases unannotated.

The paper uses evolutionary constraint scores to identify functional genomic regions and finds they are enriched for variants associated with common diseases.

The paper identifies bats as a hotspot for horizontal transfer of DNA transposons, finding over 200 putative elements and shared transposons across mammals and reptiles.

Tree House Explorer provides an interactive genome browser for phylogenomic data visualization and analysis.

The paper analyzes mitochondrial heteroplasmy in aging bats to test the Free Radical Theory of Ageing, finding age-related increases but dynamic patterns inconsistent with the theory.