Daniel M. Gatti

The paper describes a panel of genetically diverse embryonic stem cells from Diversity Outbred mice to study natural genetic variation's impact on pluripotency and differentiation.

QTLretrievR simplifies molecular QTL identification in genetically diverse populations by integrating existing tools with parallelization, reducing computational time and improving accessibility.

This study shows that low-coverage whole-genome sequencing (lcWGS) accurately reconstructs haplotypes in complex mouse crosses, outperforming SNP arrays and ddRADseq at low sequencing depths.

This study identifies six longevity-associated loci in Diversity Outbred mice through a genetic meta-analysis of lifespan data from three studies, explaining over half of the heritable variation in lifespan.

The paper identifies genetic variants affecting innate lymphoid cells in the gut using single-cell RNA-seq and validates their regulatory roles across cell types.

This study identifies new genetic loci and candidate genes associated with tuberculosis susceptibility in mice using systems genetics approaches.

The paper introduces 11 wild-derived inbred mouse strains with expanded genomic and phenotypic diversity, enhancing the scope of biomedical research.

The paper identifies cell morphology quantitative trait loci (cmQTL) in fibroblasts exposed to arsenic, revealing gene-environment interactions and genetic regulation of oxidative stress responses.

QTLViewer provides an interactive webtool for QTL mapping and exploration in CC and DO mouse populations, enhancing accessibility to genetic analysis resources.

This study maps ethanol sensitivity QTLs in Diversity Outbred mice using phenotyping and genotyping data to identify candidate genes for alcohol use disorders.

This study identifies genetic links between gut microbiota, lipids, and host transcripts in mice, revealing key roles for Akkermansia muciniphila and ornithine lipids in microbe-host interactions.

The paper introduces GBRS, a method to reconstruct diploid genomes and quantify gene expression in multi-parent populations using RNA-Seq data without requiring genotype information.

This study identifies genetic loci associated with gut microbiota composition and bile acid profiles in mice using QTL analysis and validation experiments.

This study identifies Lhfp as a regulator of bone mass through GWAS and systems genetics in mice, showing its role in osteoblast differentiation and increased BMD.

This study identifies a Trpa1 splice junction variant in Diversity Outbred mice that influences late phase formalin response, linking it to pain sensitivity mechanisms.

The paper describes a process for cleaning SNP genotype data from Diversity Outbred mice, focusing on identifying and handling low-quality samples and markers.

The paper identifies genetic variants influencing metastability in mouse embryonic stem cells by analyzing gene expression and chromatin accessibility in 185 genetically diverse cells.

R/qtl2 is a software tool for QTL mapping in multi-parent populations and high-dimensional data, offering features like linear mixed models and SNP imputation.

The paper models epistatic networks in Diversity Outbred mice linking genetic variation, gene expression, and phenotypes related to metabolic disease and diet.

This study examines how sex and diet influence physiology and liver gene expression in Diversity Outbred mice, identifying genetic and sex-by-diet interactions affecting metabolic traits.