We announce the release of kSNP3.0, a program for SNP identification and phylogenetic
analysis without genome alignment or the requirement for reference genomes. kSNP3.0 is a …

Effective use of rapid and inexpensive whole genome sequencing for microbes requires fast,
memory efficient bioinformatics tools for sequence comparison. The kSNP v2 software finds …

Motivation: Deep metagenomic sequencing of biological samples has the potential to
recover otherwise difficult-to-detect microorganisms and accurately characterize biological …

Human disease likely attributable to variola virus (VARV), the etiologic agent of smallpox,
has been reported in human populations for >2,000 years. VARV is unique among …

In vitro dose-response curves for anticancer agents are useful for predicting the clinical
response to chemotherapy, and models to capture the time-dependency of dose-response …

Background Identifying the bacteria and viruses present in a complex sample is useful in
disease diagnostics, product safety, environmental characterization, and research. Array-based …

… In an experiment on Fragaria chiloensis, ramets placed clonal offspring preferentially in
areas richer in the resource that was most limiting to the parent (SN Gardner, unpublished data). …

<p>The evolution of pesticide and drug resistance presents a daunting problem as the
pests often evolve resistance after a short time. Debate once focused on whether resistance …

… Shea N Gardner … Slezak T, Kuczmarski T, Ott L, Torres C, Medeiros D, Smith J, Truitt B,
Mulakken N, Lam M, Vitalis E, Zemla A, Zhou CE, Gardner S: Comparative … Shea N Gardner …

Recent events illustrate the imperative to rapidly and accurately detect and identify pathogens
during disease outbreaks, whether they are natural or engineered. Particularly for our …