Publications

IQC: A novel criterion for assessing feature selection stability in high-dimensional analyses.Preprint

An aging risk-factor scale: Biomarkers of renal disease and anemia are primary predictors of three-year survival in common marmosets (Callithrix jacchus).Preprint

Using geographically weighted random forests to analyze county-level diabetes prevalence in the USA.

Predictive spatial modeling of sociodemographic risk for COVID-19 mortality.

Precision of Hi-C-based metagenome-assembled genome reconstruction across binning pipelines.

Validation of body condition scoring as a screening test for low body condition and obesity in common marmosets (Callithrix jacchus).

SARS-CoV-2 surveillance of wastewater in small rural communities identifies lack of vaccine coverage as influence of omicron outbreak.

Resilience of a stochastic generalized Lotka–Volterra model for microbiome studies.

Detection of rare plasmid hosts using a targeted Hi-C approach.

Epidemiological model can forecast COVID-19 outbreaks from wastewater-based surveillance in rural communities.

Plasmid-driven evolution of bacteria.Chapter

Developing the common marmoset as a translational geroscience model to study the microbiome and healthy aging.

Applications of elastic net regression for modeling COVID-19 sociodemographic risk factors.

Hidden variable models reveal the effects of infection from changes in host survival.

Biofilms preserve the transmissibility of a multi-drug resistance plasmid.

Effects of a farm-specific fecal microbial transplant (FMT) product on clinical outcomes and fecal microbiome composition in preweaned dairy calves.

Filtering ASVs/OTUs via mutual information-based microbiome network analysis.

Effects of trust, risk perception, and health behavior on COVID-19 disease burden: Evidence from a multi-state US survey.

Phage defence by deaminase-mediated depletion of deoxynucleotides in bacteria.

Fecal microbiome profiles of neonatal dairy calves with varying severities of gastrointestinal disease.

Rhinovirus reduces the severity of subsequent respiratory viral infections by interferon-dependent and -independent mechanisms.

Structural identifiability of the generalized Lotka–Volterra model for microbiome studies.

Risk of disease and willingness to vaccinate in the United States: A population-based survey.

Microbial phenotypic heterogeneity in response to a metabolic toxin: continuous, dynamically shifting distribution of formaldehyde tolerance in Methylobacterium extorquens populations.

Vaginal biomarkers that predict cervical length and dominant bacteria in the vaginal microbiome of pregnant women.

Vaginal glycogen, not estradiol, is associated with vaginal bacterial community composition in black adolescent women.

Comparison of the vaginal microbiomes of premenopausal and postmenopausal women.

Effects of spatial structure and reduced growth rates on evolution in bacterial populations.Chapter

Stability of equilibria in quantitative genetic models based on modified-gradient systems.

Modeling time-series data from microbial communities.

Lung epithelial cells have virus-specific and shared gene expression responses to infection by diverse respiratory viruses.

Persistence of antibiotic resistance plasmids in bacterial biofilms.

Planning horizon affects prophylactic decision-making and epidemic dynamics.

Coevolutionary fitness landscapes.Chapter

Plasmid driven evolution of bacteria.Chapter

Differentiation of white-footed mice (Peromyscus leucopus) and deer mice (Peromyscus maniculatus) of the Upper Midwest using PCR melt curve analysis.

Whirling disease dynamics: an analysis of intervention strategies.

Unraveling R₀: Considerations for public health applications.

A quantitative genetic approach to predicting change in biological communities.

Coevolution.Chapter

Effectiveness of inactivated influenza vaccines in preventing influenza-associated deaths and hospitalizations among Ontario residents aged ≥65 years: Estimates with generalized linear models accounting for healthy vaccinee effects.

Trait-mediated indirect interactions and the coevolutionary process.Chapter

Time-series analyses of count data to estimate the burden of infectious diseases.

The contribution of a pollinating seed predator to selection on Silene latifolia females.

Controlling the spread of disease in schools.

When is correlation coevolution?

Antagonistic parent-offspring co-adaptation.

Can we “hedge” against the development of antiviral resistance among pandemic influenza viruses?

Geographically variable selection in Ambystoma tigrinum virus (Iridoviridae) throughout the western United States.

The contribution of parasitism to selection on floral traits in Heuchera grossulariifolia.

Phylogenetic concordance analysis shows an emerging pathogen is novel and endemic.

Antagonistic coevolution mediated by phenotypic differences between quantitative traits.

Patterns of genetic differentiation in Thamnophis and Taricha from the Pacific Northwest.

Dos and don'ts of testing the geographic mosaic theory of coevolution.

Tests of the influences of altitude and topography on genetic structure in the long-toed salamander (Ambystoma macrodactylum).

Polygenic traits and parasite local adaptation.

Identification of selective sources: partitioning selection based on interactions.

Nesting fidelity and molecular evidence for natal homing in the freshwater turtle, Graptemys kohnii.

Resistance of neonates and field-collected garter snakes (Thamnophis spp.) to tetrodotoxin.

Reciprocal selection at the phenotypic interface of coevolution.

The evolutionary response of predators to dangerous prey: Hotspots and coldspots in the geographic mosaic of coevolution between garter snakes and newts.

Repeated injections of TTX do not affect TTX resistance or growth in the garter snake Thamnophis sirtalis.