David D. Pollock

The paper uses population genomics to analyze Schistosoma japonicum re-emergence in Sichuan, China, revealing a diverse parasite population maintained in reservoirs and a regional transmission network.

ProteoMeter integrates multi-PTM and limited proteolysis data to map proteomic changes to residue level, demonstrating its use in analyzing HCoV-229E infection.

An R-Shiny app built on DataFed lets researchers filter metagenomic sample metadata by location, date and environmental variables, then download only matching sequence files via Globus.

The paper integrates AMGs and phage assembly into a genome-scale metabolic model to predict their impact on host metabolism and phage production, revealing synergistic and antagonistic effects.

The paper develops and refines methods to sample and sequence cyanobacteria, cyanophages, and their environment in the Salish Sea to study host-pathogen dynamics.

Hydroplane introduces a fast Bayesian method for metagenomic evolutionary analysis, demonstrating effectiveness in detecting homologs and estimating lineage diversity using kmer data.

The paper identifies and extends ancient simple sequence repeat-derived regions in the human genome using a kmer-based approach, finding 6.77% of the genome likely derived from SSRs.

The paper introduces Markov katana, a Bayesian resampling method for phylogenetic tree search, showing it can efficiently estimate posterior distributions.

The paper identifies an excess of gene conversion and recombination events in gorillas linked to PRDM9 and Alu elements, showing lineage-specific motif targeting and depletion.

The paper improves a Bayesian method to analyze Alu element evolution, revealing fluctuating sequence constraints and over 4,000 replicative loci, challenging previous classifications.