Mark Daly

Chromosome level genome assembly and annotation of highly invasive Japanese stiltgrass (Microstegium vimineum)

This paper presents a chromosome-level genome assembly and annotation of Japanese stiltgrass, identifying polyploidy history and recent transposable element activity.

Whole genome view of the consequences of a population bottleneck using 2926 genome sequences from Finland and United Kingdom

The paper compares genome sequences from Finnish and British populations to identify genetic variants enriched in a population bottleneck, finding significant enrichment of rare variants in Finns.

Subtle stratification confounds estimates of heritability from rare variants

This study shows that subtle population stratification can confound heritability estimates from rare variants, even after standard corrections, suggesting the need for better stratification control in genetic studies.

Quantifying the unobserved protein-coding variants in human populations provides a roadmap for large-scale sequencing projects

Modeling Linkage Disequilibrium Increases Accuracy of Polygenic Risk Scores

This paper introduces LDpred, a method that improves polygenic risk score accuracy by modeling linkage disequilibrium, showing increased R2 values in schizophrenia and multiple sclerosis datasets.

Haplotypes of common SNPs can explain missing heritability of complex diseases

The paper shows that haplotypes of common SNPs explain more heritability of complex diseases than individual SNPs alone.

Partitioning heritability by functional category using GWAS summary statistics

This paper partitions heritability across functional genomic elements using GWAS summary statistics to identify trait-specific enrichments.

Regulatory variants explain much more heritability than coding variants across 11 common diseases

The paper shows regulatory variants explain significantly more heritability than coding variants for 11 diseases, using imputed data across 218 cell types.