UW Genome Sciences

Human-specific tandem repeat expansion and differential gene expression during primate evolution
Arvis Sulovari is lead author on a paper in PNAS.

The effects of manipulating levels of replication initiation factors on origin firing efficiency in yeast
Kelsey Lynch is lead author on a paper in PLOS Genetics.

Temperature preference can bias parental genome retention during hybrid evolution
Dunham Lab members are authors on a paper in PLOS Genetics.

Fitness benefits of loss of heterozygosity in Saccharomyces hybrids
Dunham Lab members are authors on a paper in Genome Research.

Mapping person-to-person variation in viral mutations that escape polyclonal serum targeting influenza hemagglutinin
Juhye Lee is lead author on a paper in eLife showing how there is extensive person-to-person variation in how human immunity selects mutations in influenza virus.

Adaptive archaic introgression of copy number variants and the discovery of previously unknown human genes
PingHsun Hsieh is first author on a paper in Science. Other authors include GS grad Mitchell Vollger, postdoc David Porubsky, and former postdoc Stuart Cantsilieris.

Phenotypic and Genotypic Consequences of CRISPR/Cas9 Editing of the Replication Origins in the rDNA of Saccharomyces cerevisiae
Joe Sanchez and Bonny Brewer are lead authors on a paper in Genetics.

Human artificial chromosomes that bypass centromeric DNA
Glennis Logsdon is lead author on a paper in Cell.

Metaproteomics reveal that rapid perturbations in organic matter prioritize functional restructuring over taxonomy in western Arctic Ocean microbiomes
Nunn and Noble Lab members are authors on a paper in Nature's Journal of Microbial Ecology: ISME.

Calling star alleles with Stargazer in 28 pharmacogenes with whole genome sequences
Steven Lee is lead author on a paper in Clinical Pharmacology & Therapeutics.

A combination of transcription factors mediates inducible interchromosomal contacts
Seungsoo Kim is lead author on a paper in eLife.

Superovulation alters global DNA methylation in early mouse embryo development
Thomas Smith is lead author on a paper in Epigenetics.

Enhancer Chromatin and 3D Genome Architecture Changes from Naive to Primed Human Embryonic Stem Cell States
Stephanie Battle is lead author on a paper in Stem Cell Reports.

The single-cell transcriptional landscape of mammalian organogenesis
Jun Cao and Malte Spielmann are lead authors on a paper in Nature.

High-throughput identification of dominant negative polypeptides in yeast
Mike Dorrity is lead author on a paper in Nature Methods.

Dynamics of gene expression in single root cells of A. thaliana
Trapnell, Fields, Queitsch, and Cuperus Lab members Ken Jean-Baptiste, Jose McFaline, Cristina Alexandre, Lauren Saunders, Mike Dorrity, and Kerry Bubb are authors on paper in Plant Cell.

Autophagy accounts for approximately one-third of mitochondrial protein turnover and is protein selective
Evvie Vincow is lead author on a paper in Autophagy.

Reconciling disparate estimates of viral genetic diversity during human influenza infections
Katherine Xue is lead author on a letter in Nature Genetics resolving the question of how much viral genetic diversity is present in human influenza infections.

Comprehensive profiling of translation initiation in influenza virus infected cells
Heather Machkovech is lead author on new study in PLoS Pathogens of translation initiation in influenza-infected cells.

A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens
Molly Gasperini is lead author on paper in Cell.

Neurodevelopmental disease genes implicated by de novo mutation and copy number variation morbidity
Brad Coe and Madeleine Geisheker are authors on paper in Nature Genetics.

Characterizing the Major Structural Variant Alleles of the Human Genome
Peter Audano and Arvis Sulovari are lead authors on paper in Cell.

Long-read sequence and assembly of segmental duplications
Mitchell Vollger is lead author on paper in Nature Methods.

DNA methylation dynamics during embryonic development and postnatal maturation of the mouse auditory sensory epithelium
Cristina Valensisi is co-lead author on paper in Scientific Reports.

Modeling site-specific amino-acid preferences deepens phylogenetic estimates of viral sequence divergence
Grad student Sarah Hilton is first author on paper in Virus Evolution examining how deep mutational scanning experiments can be used to inform phylogenetic estimates of divergence times

Glucocerebrosidase deficiency promotes protein aggregation through dysregulation of extracellular vesicles
Ruth Thomas and Evvie Vincow are lead authors on paper in PLOS Genetics.

Lon protease inactivation in Drosophila causes unfolded protein stress and inhibition of mitochondrial translation
Gautam Pareek is lead author on paper in Cell Death Discovery.

Ancient convergent losses of Paraoxonase 1 yield potential risks for modern marine mammals
Furlong Lab members are authors on paper in Science.
New York Times | The Atlantic | National Geographic

A Multiplex Homology-Directed DNA Repair Assay Reveals the Impact of More Than 1,000 BRCA1 Missense Substitution Variants on Protein Function
Lea Starita is lead author on paper in AJHG.

Accurate classification of BRCA1 variants with saturation genome editing
Former grad Greg Findlay is lead author on paper in Nature.
New York Times | The Atlantic

Human T cell receptor occurrence patterns encode immune history, genetic background, and receptor specificity
Will DeWitt is lead author on paper in eLife.