Will Freyman

A tribal-scale phylogenomic perspective on ancestry and major lineages of the allotetraploid Hawaiian silversword alliance (Madieae, Compositae)

The paper uses phylogenomic analysis to resolve the ancestry and subgenome origins of the allotetraploid Hawaiian silversword alliance, identifying its allopolyploid origin and relationships to diploid relatives.

Bayesian inference of population structure using identity-by-descent-based stochastic block models

This paper introduces a Bayesian framework for inferring population structure using IBD-based stochastic block models, showing improved accuracy over heuristic methods in both simulated and real data.

Association between polygenic risk and survival in breast cancer patients

This study finds that higher polygenic risk scores for breast cancer are associated with longer survival in patients, suggesting a link between genetic predisposition and less aggressive tumors.

Insights into Ancestral Diversity in Parkinsons Disease Risk: A Comparative Assessment of Polygenic Risk Scores

This study compares polygenic risk scores for Parkinson's disease across seven ancestries, finding varying predictive accuracy and highlighting the need for ancestry-specific models.

Bidirectional relationship between olfaction and Parkinson's disease

This study identifies genetic correlations between hyposmia and Parkinson's disease, finding a strong causal link from PD to hyposmia but weaker evidence for the reverse.

The shared genetic architecture and evolution of human language and musical rhythm

This study investigates the shared genetic architecture between rhythm and dyslexia using large-scale genome-wide association studies.

Reconstructing parent genomes using siblings and other relatives

HAPI-RECAP reconstructs parent genomes from full siblings and relatives, achieving high accuracy and enabling phenotypic analyses and pedigree reconstruction.

Phasing millions of samples achieves near perfect accuracy, enabling parent-of-origin classification of variants

The paper benchmarks haplotype phasing methods on large datasets and introduces HAPTIC, an inter-chromosomal phasing method achieving low error rates for parent-of-origin classification.

MUSSEL: Enhanced Bayesian Polygenic Risk Prediction Leveraging Information across Multiple Ancestry Groups

MUSSEL improves polygenic risk prediction across populations by integrating GWAS summary statistics and using Bayesian hierarchical modeling with ensemble learning.

Multi-ancestry genome-wide meta-analysis in Parkinson's disease

This paper conducts a multi-ancestry genome-wide meta-analysis of Parkinson's disease, identifying 78 independent loci and 23 genes associated with PD risk.

A new method for multi-ancestry polygenic prediction improves performance across diverse populations

The paper introduces CT-SLEB, a method for multi-ancestry polygenic prediction that improves performance in non-European populations using GWAS summary statistics and simulation studies.

Discovery of genomic loci associated with sleep apnoea risk through multi-trait GWAS analysis with snoring

This study identifies 49 genetic loci associated with sleep apnoea risk using multi-trait GWAS, with 29 replicated in a large cohort, and finds genetic correlations with several complex traits.

Bonsai: An efficient method for inferring large human pedigrees from genotype data

Bonsai infers large human pedigrees from genotype data by assembling smaller pedigrees of close relatives, improving accuracy and efficiency through new formulas and methods.

Fast and robust identity-by-descent inference with the templated positional Burrows-Wheeler transform

This paper introduces TPBWT for fast and robust IBD inference, showing improved speed and accuracy over existing methods, especially in handling phasing errors.