Anthony D. Long

The paper shows that selection on cuticle color in Drosophila leads to genome-wide allele frequency shifts, not localized to major genes, and identifies a technical artifact in pool-seq studies.

This study identifies robust Xist expression in male Peromyscus leucopus somatic cells, showing gene-selective repression rather than global X-chromosome inactivation.

This paper shows that low statistical power in pool-seq GWAS can create the illusion of polygenicity by masking simple genetic architectures through noise.

The paper uses fibroblast cultures from deermice and mice to show differences in innate immune responses and ERV/TE activation to TLR agonists.

Haplomatic uses deep learning to adaptively adjust genomic resolution in genetic mapping studies, achieving higher resolution without sacrificing accuracy.

The paper uses extreme QTL mapping in Drosophila to identify genetic loci associated with zinc toxicity resistance, finding seven QTL and ten genes with genotype-by-treatment effects.

The paper uses ATAC-seq to analyze chromatin accessibility across four tissues in eight Drosophila melanogaster genotypes, identifying polymorphic regions and candidate causal variants after correcting for structural variants.

The paper uses a bulked phenotyping approach to identify QTL associated with malathion resistance in Drosophila melanogaster, finding one QTL implicating Cyp6g1 and another distinct from previous GWAS results.

The paper evaluates the utility of a closed Peromyscus leucopus colony for dissecting complex traits using low-pass sequencing and simulations, finding modest QTL detection power but potential for extension to other colonies.

This paper introduces an X-QTL mapping strategy using bulked phenotyping and pooled sequencing in Drosophila, demonstrating its power and efficiency for identifying genetic loci associated with traits like caffeine resistance.

This study investigates the genetic basis of Drosophila melanogaster's defense against Beauveria bassiana using QTL mapping and evolve and resequence approaches, revealing genetic variation and trade-offs in immune defense.

HapSolo improves diploid genome assembly by removing secondary haplotigs, enhancing assembly metrics and downstream scaffolding performance across three species.

The paper describes two synthetic outcrossed yeast populations for complex trait analysis, showing high recombination and accurate haplotype frequency estimation from pooled sequencing data.

The paper identifies numerous structural variants in Drosophila genomes and shows they contribute to complex trait variation through allelic heterogeneity.

The paper investigates how standing and de novo genetic variants contribute to drug adaptation in yeast, finding they act on shared molecular targets but via different mechanisms.

The paper uses pooled population resequencing of clam shrimp to identify genomic regions associated with local adaptation, finding thirteen regions with significant allele frequency divergence.

The paper uses forward simulations to show that a model of partial recessivity aligns with GWAS results and explains inconsistencies in heritability estimates.

The paper analyzes long molecule sequencing data to improve genome assembly contiguity and completeness, presenting a hybrid approach that achieves high-quality assemblies with modest coverage.