William J. Murphy

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.

This paper describes a pig model of Angelman syndrome that mirrors early developmental symptoms observed in humans.

This study investigates the genetic and anatomical basis of olfaction in dogs and wild canids, finding no evidence of human-directed selection for enhanced olfaction in domestic dogs.

The paper analyzes ancestry and selection in Bengal cats using sequencing data to identify genetic factors underlying coat color traits.

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.

This paper describes the development of an antisense oligonucleotide (ASO) therapy targeting the UBE3A-AS transcript to reactivate paternal UBE3A expression in Angelman syndrome models.

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

The paper presents a new domestic cat genome assembly using long-read sequencing, identifies novel variants associated with cancer and dwarfism, and highlights the utility of feline genomics for biomedical research.

This study analyzes genetic diversity in lions over time, finding decreased nuclear diversity and increased fine-scale structure due to habitat fragmentation, while mitochondrial diversity remained stable.

The paper analyzes whole genome sequences from 27 felid species to show that recombination patterns influence phylogenetic signal, leading to misleading divergence time estimates when ignored.

The paper predicts the viability of archaic human hybrids using mitochondrial DNA divergence patterns to assess fertility differences between species pairs.