Jennifer F. Hughes

The paper sequences the rat Y chromosome and reveals a short pseudoautosomal region with high recombination rate and unique evolutionary features.

The paper re-examines the boundary of the human pseudoautosomal region 1 (PAR1) using genomic data and finds evidence supporting its original position, narrowing it to a 201-bp window.

The paper identifies sex-chromosomal and autosomal gene responses to Xi and Y dosage in four human cell types, showing robustness in sex-chromosomal effects and cell-type-specific autosomal responses.

The paper shows that the inactive X and Y chromosomes similarly affect autosomal gene expression in human cells through shared transcription factors.

The paper shows that the inactive X chromosome modulates the expression of the active X chromosome in humans, affecting 38% of X-linked genes and contributing to sex differences in disease.

SHIMS 3.0 uses ultra-long nanopore reads to improve assembly of structurally complex genomic regions with high accuracy and reduced manual effort.

The paper identifies 26 conserved palindromes on the human X Chromosome and finds that natural selection preserves protein-coding gene families within them, while spacers show structural instability.

The paper introduces SHIMS 2.0, a cost-effective and high-throughput method for generating high-quality reference sequences from complex genomic regions.