Jeffrey A. Bailey

The paper functionally validates the Plasmodium falciparum K13 C580Y mutation in Ethiopian isolates, showing it confers artemisinin tolerance.

The paper identifies key components for building a baseline evolutionary model of Plasmodium falciparum to better understand genomic variation and drug resistance.

The paper introduces a standardized format for storing phased targeted sequencing data and provides tools to create and manipulate this format.

This study shows that CD8+ T cells in EBV-positive Burkitt lymphoma are not exhausted but metabolically active and may respond to immune checkpoint inhibitors.

The paper analyzes the spread of Plasmodium falciparum with hrp2/3 deletions in Peru, finding that demographic changes from malaria control and potential selection pressures drove their fixation.

This study compares ADCC activity of CD56neg and CD56dim NK cells against EBV-type 1 and 2 Burkitt lymphoma cells, finding EBV-T2 cells are more susceptible to direct cytotoxicity.

The paper identifies tri-SNP haplotypes in HLA-DRA associated with type 1 diabetes and celiac disease, and links them to differences in complement system genes C4A and C4B.

The paper assesses EBV dependence in various infected cell models and finds that EBV loss sensitivity varies across cell types, with lymphoid malignancies being more dependent than gastric adenocarcinoma lines.

COATswga designs sWGA primers for efficient microbial genome recovery, showing improved amplification efficiency and coverage in low-parasitemia samples.

This paper develops a scalable long-read sequencing method for HPV16 genome analysis, showing high accuracy and capturing full genetic diversity across multiple lineages.

The paper investigates how geographical variation influences the adaptive evolution of Plasmodium falciparum mutations that counteract sickle cell trait protection.

The paper develops a targeted sequencing panel for Plasmodium falciparum that approximates whole genome sequencing for population genetics analyses.

The paper analyzes whole-genome-sequenced Plasmodium falciparum samples to understand gene deletions associated with malaria rapid diagnostic tests, identifying patterns of chromosomal rearrangements and duplication.

The paper identifies EBV variants, particularly in LMP1, associated with survival in Burkitt lymphoma and defines prognostic subgroups based on these features.

This study shows that loss of Irf8+ macrophages in zebrafish leads to cardiac arrhythmia, dysfunction, and hyperinnervation.

This study performs population genomic analysis of Plasmodium ovale species in sub-Saharan Africa, finding differences in nucleotide diversity and signatures of selection between the two species.

This study analyzes genetic diversity and selection signatures in the Pfcsp gene of Plasmodium falciparum from Tanzanian regions with varying malaria transmission to inform vaccine development.

The paper introduces two methods to directly estimate malaria parasite complexity of infection from allele frequency data, showing comparable accuracy to existing methods and identifying continental differences in COI.

The paper examines the early distribution of the Pfk13-R561H mutation in Rwanda using blood spot samples from a demographic health survey, finding spatial clustering of the mutation.

The paper optimizes an expression microdissection method to improve miRNA yield and in vivo cell-type specificity for qPCR analysis.

The paper analyzes genetic diversity and drug resistance mutations in Tanzanian Plasmodium falciparum isolates using molecular inversion probes, revealing population structure and geographic patterns of genetic relatedness.

The paper develops a method to sequence microhaplotypes from Plasmodium falciparum heterozygomes, achieving high coverage, specificity, and sensitivity for detecting polyclonal infections.

The paper analyzes EBV genomes from eBL patients and controls in Kenya, finding type 1 EBV is more common in patients and identifying genetic variants associated with eBL.

This study analyzes the genetic structure of Plasmodium falciparum in the DRC, identifying an east-west haplotype divide linked to antimalarial resistance and evidence of gene flow and selection pressures.

The paper uses whole-genome sequencing to show that Plasmodium falciparum parasites in Zanzibar and mainland Tanzania share genetic ancestry, indicating ongoing importation despite malaria control efforts.