Andrew G. Clark

This paper develops a statistical framework to detect gene-environment interactions by focusing on variance-associated genetic variants, finding higher discovery rates for BMI and disease-related traits.

This study simulates CRISPR-based underdominance gene drives using toxin-antidote principles to assess their performance and confinability in population modification and suppression.

This study shows that the microbiome interacts with mating to alter gene expression in Drosophila females, affecting fecundity and immune responses.

This paper presents a CRISPR homing gene drive in Drosophila that reduces resistance allele formation by targeting a haplolethal gene, achieving high efficiency in allele spreading.

With a new structural LTR module, RepeatModeler2 recovers 2.9 to 4.7 times more curated TE families near-perfectly than RepeatModeler 1.0.11 in fruit fly, zebrafish, and rice.

The paper evaluates CRISPR-based toxin-antidote gene drive systems to assess their resistance resistance and regional confinement capabilities for population modification and suppression.

The paper models CRISPR homing gene drives with multiple gRNAs, finding optimal gRNA numbers and showing their limited standalone effectiveness but value when combined with other strategies.

The paper introduces a CRISPR gene drive system called TARE that limits resistance and spreads regionally in Drosophila.

The paper uses CRISPR to generate mutants of three Y-linked genes in Drosophila melanogaster, revealing their roles in fertility and highlighting the complexity of Y chromosome function.

This study investigates the evolutionary dynamics of 7 bp satellites in Drosophila virilis, identifying platform-specific sequencing biases and showing how satellite composition changes over time and space.

The paper reconstructs 9000 years of agricultural diet in Asia and shows its impact on genetic variation in 29 Asian populations, identifying genes related to metabolism as targets of dietary-driven selection.

The paper identifies eight genes affecting female sperm competition success in Drosophila melanogaster, with two genes specifically impacting neuronal pathways.

The paper analyzes bulk RNA-seq data to identify factors influencing immune cell infiltration in human tissues, finding associations with age, sex, and genetic variants.

The paper investigates how natural genetic variation affects resistance to CRISPR gene drives in Drosophila, finding that resistance rates vary widely and are polygenic with small-effect loci.

The paper demonstrates synthetic target sites and split drives as safeguarding strategies to prevent unintended spread of CRISPR gene drives from lab to natural populations.

The paper identifies four conserved genes in male date palms, supporting a two-mutation model for the evolution of dioecy from hermaphroditism.

This study evaluates strategies to reduce resistance allele formation in CRISPR gene drives, finding that using the nanos promoter, adding a second gRNA, and using an autosomal male germline drive can lower resistance rates.

The paper investigates the genetic basis of natural variation in position effect variegation (PEV) and finds that most variance does not map to known modifiers but instead to promoter and transcription start site regions.

The paper develops a pooled sequencing method to detect meiotic drivers in Drosophila and identifies a candidate driver in a centromere-linked region with an 8% increased transmission frequency.