Daniel R. Schrider

Long-read sequencing reveals genomic landscape of structural variants in a major disease vector

The paper uses long-read sequencing to identify structural variants in Culex quinquefasciatus, revealing their potential role in insecticide resistance and adaptation.

Interpreting Convolutional Neural Networks in Population Genetics

This study investigates how convolutional neural networks in population genetics implicitly compute summary statistics and reveals their ability to efficiently approximate long-range linkage disequilibrium.

Evolutionary rescue model informs strategies for driving cancer cell populations to extinction

This paper develops an evolutionary model to evaluate extinction therapy strategies for cancer, showing it outperforms combination therapy when cross-resistance exists.

Leveraging long-read assemblies and machine learning to enhance short-read transposable element detection and genotyping

This study introduces TEforest, a machine learning method that improves short-read TE detection and genotyping by leveraging long-read assemblies, achieving better accuracy than traditional methods.

Soft selective sweeps predominate in the yellow fever mosquito Aedes aegypti

The paper uses machine learning to detect soft and hard selective sweeps in Aedes aegypti, finding soft sweeps are more common, suggesting rapid adaptation to environmental pressures.

Recombination and the role of pseudo-overdominance in polyploid evolution

The paper simulates evolution in diploid and autotetraploid populations to show that pseudo-overdominance is more common in polyploids due to reduced recombination and increased masking of deleterious mutations.

The contribution of transposable element insertions to genetic diversity in Aedes aegypti populations

This study examines transposable element insertions in Aedes aegypti genomes to assess their contribution to genetic diversity and potential role in insecticide resistance.

Accessible, realistic genome simulation with selection using stdpopsim

The paper extends the stdpopsim simulation framework to include realistic selection models, enabling studies of selection's impact on genetic variation across species.

Population size rescaling significantly biases outcomes of forward-in-time population genetic simulations

This study shows that rescaling population sizes in forward-in-time simulations introduces significant biases in key outcomes, even at small scaling factors, and suggests that small-scale simulations can help quantify these biases.

Genetic polymorphisms of Leukocyte Immunoglobulin-Like Receptor B3 (LILRB3) gene in African American kidney transplant recipients are associated with post-transplant graft failure

The paper identifies four SNPs in the LILRB3 gene associated with graft failure in African American kidney transplant recipients and links them to immune-related diseases.

Strong positive selection in Aedes aegypti and the rapid evolution of insecticide resistance

The paper identifies strong selective sweeps in Aedes aegypti genomes linked to insecticide resistance, showing rapid evolutionary adaptation to vector control.

Localizing post-admixture adaptive variants with object detection on ancestry-painted chromosomes

The paper develops a deep learning object detection method to identify post-admixture adaptive variants by analyzing ancestry-painted genomes, achieving more precise localization than existing methods.

Expanding the stdpopsim species catalog, and lessons learned for realistic genome simulations

The paper expands the stdpopsim species catalog and improves genome simulations by adding non-crossover recombination and species-specific annotations, making simulations more realistic for non-model organisms.

Genome variation and population structure among 1,142 mosquitoes of the African malaria vector species Anopheles gambiae and Anopheles coluzzii

The paper analyzes genome variation in 1,142 Anopheles mosquitoes to study population structure and insecticide resistance.

Natural diversity of the malaria vector Anopheles gambiae

The paper sequences genomes of 765 malaria vector mosquitoes to study genetic diversity and insecticide resistance.