High-throughput chromatin accessibility profiling at single-cell resolution.

Here we develop a high-throughput single-cell ATAC-seq (assay for transposition of accessible chromatin) method to measure physical access to DNA in whole cells. Our approach integrates fluorescence imaging and addressable reagent deposition across a massively parallel (5184) nano-well array, yielding a nearly 20-fold improvement in throughput (up to ~1800 cells/chip, 4-5 h on-chip processing time) and library preparation cost (~81¢ per cell) compared to prior microfluidic implementations. We apply this method to measure regulatory variation in peripheral blood mononuclear cells (PBMCs) and show robust, de novo clustering of single cells by hematopoietic cell type

An Open-Source, Programmable Pneumatic Setup for Operation and Automated Control of Single- and Multi-Layer Microfluidic Devices

The open-source pneumatic setup and software described here can be used for both manual and fully programmable pneumatic control of most PDMS-based microfluidic devices. Our associated software, Geppetto, has both an interactive GUI for manipulating device valves and visualizing their current state (open or closed) as well as command line scripting functionality for automating experiments

AutoCAD Designs

Microfluidic design files for replicating our experiment

Aiptasia Larvae Trapping Imaging Data

These are AVIs built from image captures of trapped Aiptasia. These AVIs come from many different experiments. Folder hierarchy is date of experiment, treatment (Seawater of DCMU), and then trap location (arbitrary)