Alexis Garretson

Benchmarking Genomic Variant Calling Tools in Inbred Mouse Strains: Recommendations and Considerations

The paper benchmarks variant calling tools in inbred mouse strains, finding tradeoffs between recall and precision and recommending ensemble approaches for optimal results.

Colibactin-associated mutations in the human colon appear to reflect anatomy and early exposure, not oncogenesis

The paper analyzes mutations in colon crypts to determine if colibactin is linked to early-onset CRC, finding that its association reflects anatomy rather than oncogenesis.

Recruitment, rewiring, and deep conservation in flowering plant gene regulation

The paper presents a scalable TFBS assay to create an atlas of 3,000 genome-wide binding site maps for 360 TFs across 10 flowering plant species, revealing conservation and rewiring of regulatory elements.

Increased rate of de novo single nucleotide mutation in house mice born through assisted reproduction

This study finds a ~30% increase in de novo single nucleotide mutations in house mice conceived via assisted reproductive technologies compared to naturally conceived mice.

Mapping the Global Distribution of Mus musculus: Implications for Evolutionary Genetics

This study updates the geographic range of house mice using biodiversity data and genetic analysis, revealing their environmental limits and ancestral origins in South Asia.