Publications

A kernel-based change detection method to map shifts in phytoplankton communities measured by flow cytometry

Automated, ship-board flow cytometers provide high-resolution maps of phytoplankton composition over large swaths of the world’s …

Diel transcriptional oscillations of light-sensitive regulatory elements in open-ocean eukaryotic plankton communities

The 24-h cycle of light and darkness governs daily rhythms of complex behaviors across all domains of life. Intracellular …

Diel oscillations in the feeding activity of heterotrophic and mixotrophic nanoplankton in the North Pacific Subtropical Gyre

Daily oscillations in photosynthetically active radiation strongly influence the timing of metabolic processes in picocyanobacteria, …

The Importance of the Phytoplankton “Middle Class” to Ocean Net Community Production

The net balance between photosynthesis and respiration in the surface ocean is a key regulator of ocean-atmosphere carbon dioxide (CO2) …

Diel variability of bulk optical properties associated with the growth and division of small phytoplankton in the North Pacific Subtropical Gyre

Cross-platform observing systems are requisite to capturing the temporal and spatial dynamics of particles in the ocean. We present …

Two distinct pools of B12 analogs reveal community interdependencies in the ocean

Organisms within all domains of life require the cofactor cobalamin (vitamin B 12), which is produced only by a subset of bacteria and …

Dynamics of Teleaulax -like cryptophytes during the decline of a red water bloom in the Columbia River Estuary

The mixotrophic ciliate, Mesodinium rubrum, is a globally distributed ciliate that relies on the acquisition and use of chloroplasts …

Biological production, export efficiency, and phytoplankton communities across 8000 km of the South Atlantic

In situ oxygen tracers (triple oxygen isotope and oxygen/argon ratios) were used to evaluate meridional trends in surface biological …

Scalable clustering algorithms for continuous environmental flow cytometry

Motivation: Recent technological innovations in flow cytometry now allow oceanographers to collect high-frequency flow cytometry data …

Real-time collaborative analysis with (almost) pure SQL: A case study in biogeochemical oceanography

We consider a case study using SQL-as-a-Service to support “instant analysis” of weakly structured relational data at a …

Collaborative science workflows in SQL

SQLShare is a Web-based application that emphasizes a simple upload-query-share protocol over conventional database design and uses ad …

Seaflow: A novel underway flow-cytometer for continuous observations of phytoplankton in the ocean

Current automated flow cytometers primarily target the dynamics of phytoplankton communities in coastal environments and lack the …

flowPhyto: Enabling automated analysis of microscopic algae from continuous flow cytometric data

Motivation: Flow cytometry is a widely used technique among biologists to study the abundances of populations of microscopic algae …