David George Ashbrook

Brain structural and genetic correlates of motor coordination and learning behaviours: modelling developmental coordination disorder

In 14 BXD mouse strains, those modelling developmental coordination disorder have relatively larger cortex and smaller cerebellar/subcortical volumes; this axis tracks motor coordination but maps to no single QTL.

Acute opioid responses are modulated by dynamic interactions of Oprm1 and Fgf12

This study identifies time-dependent epistatic interactions between Oprm1 and Fgf12 that modulate opioid-induced locomotion in mice and links Fgf12 to opioid behavior in humans.

Genetic Modulation of Lifespan: Dynamic Effects, Sex Differences, and Body Weight Trade-offs

This study identifies genetic loci affecting lifespan dynamics, sex differences, and body weight trade-offs in mice using an actuarial approach.

The Pgb1 locus controls glycogen aggregation in astrocytes of the aged hippocampus without impacting cognitive function

The paper identifies the Pgb1 locus as controlling glycogen aggregation in aged hippocampal astrocytes without affecting cognitive function.

Creating a biomedical knowledge base by addressing GPT inaccurate responses and benchmarking context

GNQA, a retrieval-augmented GPT question-answering system over 3000 GeneNetwork, aging and diabetes papers, cites source paragraphs; RAGAS rated answer relevance above human thumbs-up ratings (89% vs 76%).

Epigenetic study of the long-term effects of Gulf War illness

This study investigates the long-term epigenetic effects of Gulf War illness by analyzing DNA methylation in mice exposed to stress and organophosphate compounds.

Global dissection of the impact of Alzheimer's disease on brain architecture and behavior: High resolution MRH resolves robust regional effects

This study quantifies the impact of Alzheimer's disease mutations on brain regions in mice, revealing bidirectional volume changes and sex-specific effects.

Building pangenome graphs

This paper introduces PGGB, a pipeline for building pangenome graphs that includes all variation without bias, enabling variation detection, conservation measurement, recombination event detection, and phylogenetic inference.

Determining susceptibility loci in triple negative breast cancer using a novel pre-clinical model

The paper develops a novel murine model to identify genetic modifiers of triple-negative breast cancer traits and identifies susceptibility loci with potential translational relevance.

GenomeMUSter mouse genetic variation service enables multi-trait, multi-population data integration and analyses

GenomeMUSter integrates and harmonizes mouse genetic variation data across populations to enable multi-trait, multi-population analyses and improve variant-phenotype association studies.

RNA Strain-Match: A tool for matching single-nucleus, single-cell, or bulk RNA-sequencing alignment data to its corresponding genotype

RNA Strain-Match matches RNA sequencing alignment data to genotype without variant call files, correcting 13% of sample mismatches in mouse models.

Genome-wide screen identifies host loci that modulate M. tuberculosis fitness in immunodivergent mice

The paper uses transposon mutagenesis and QTL mapping to identify host-pathogen genetic interactions affecting Mtb fitness in immunodivergent mice.

A novel quantitative trait locus implicates Msh3 in the propensity for genome-wide short tandem repeat expansions in mice

The paper identifies a quantitative trait locus on chromosome 13 associated with STR expansion propensity in mice, implicating Msh3 in genome-wide mutation patterns.

Investigating mouse motor coordination using quantitative trait locus analysis to model the genetic underpinnings of developmental coordination disorder

This study uses QTL analysis in BXD mice to identify genetic loci associated with motor coordination traits similar to human DCD.

Developmental Coordination Disorder: What Can We Learn From Recombinant Inbred Mice Using Motor Learning Tasks and Quantitative Trait Locus Analysis

This study uses BXD mice and QTL analysis to identify genetic factors linked to motor learning traits resembling developmental coordination disorder.

A natural mutator allele shapes mutation spectrum variation in mice

The paper identifies a natural mutator allele in mice that increases C>A germline mutations by 50% due to a variant of the Mutyh gene.

Deep sequencing of a large family of isogenic mice enables complex variants discovery and accurate phenotype mapping

The paper uses linked-read whole-genome sequencing to identify DNA variants in BXD mice and maps them to phenotypes, enabling systems genetics and precision medicine.

SVJAM: Joint Analysis of Structural Variants Using Linked Read Sequencing Data

SVJAM improves structural variant calling in linked-read data by jointly analyzing multiple samples, recovering missed variants and correcting incorrect types compared to LongRanger.

Gene-by-environmental modulation of longevity and weight gain in the murine BXD family

The paper examines how diet and genetics interact to affect longevity and weight gain in mice, finding that genetic differences significantly influence the impact of high-fat diets on lifespan.

Old data and friends improve with age: Advancements with the updated tools of GeneNetwork

The paper reanalyzes old BXD mouse data with new tools to discover novel QTL and candidate genes involved in behavior and drug response.

GeneNetwork: a continuously updated tool for systems genetics analyses

GeneNetwork provides updated tools for systems genetics analyses, enabling predictive medicine by identifying candidate genes for immune phenotypes.

Body weight at young adulthood and association with epigenetic aging and lifespan in the BXD murine family

This study examines the relationship between body weight, epigenetic aging, and lifespan in BXD mouse strains, finding that higher body weight and high-fat diet accelerate epigenetic aging and shorten lifespan.

Heritability of the Mouse Brain Connectome

This study examines the heritability of mouse brain connectomes using high-resolution MRI and finds high heritability in brain volumes and diffusion metrics.

Dopamine Genotype Interacts with Inter-Individual Licking Received on Later-Life Licking Provisioning in Female Rat Offspring

The paper investigates how dopamine genotype interacts with early-life maternal care to influence later-life maternal care provisioning in female rat offspring.

The expanded BXD family of mice: A cohort for experimental systems genetics and precision medicine

BXD mouse family doubled to 150 inbred strains segregating over 6 million variants, with roughly 10,000 located recombinations and a public phenome exceeding 7000 traits.

Genome-Epigenome Interactions Associated with Myalgic Encephalomyelitis/Chronic Fatigue Syndrome

This study identifies genetic and epigenetic interactions associated with ME/CFS by analyzing DNA methylation and SNP variability in patients and healthy controls.