Adaptable data management for systems biology investigations. - John Boyle; Hector Rovira; Christopher C. Cavnor; David B. Burdick; Sarah A. Killcoyne; Ilya Shmulevich (BMC Bioinform., 2009)

Howdah - A Flexible Pipeline Framework for Analyzing Genomic Data. - Steven Lewis; Sheila Reynolds; Hector Rovira; Mike O'Leary; Sarah A. Killcoyne; Ilya Shmulevich; John Boyle (CloudCom, 2010)

An Integration Architecture Designed to Deal with the Issues of Biological Scope, Scale and Complexity. - Hector Rovira; Sarah A. Killcoyne; Ilya Shmulevich; John Boyle (DILS, 2010)

SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments. - David B. Burdick; Christopher C. Cavnor; Jeremy Handcock; Sarah A. Killcoyne; Jake Lin; Bruz Marzolf; Stephen A. Ramsey; Hector Rovira; Ryan Bressler; Ilya Shmulevich; John Boyle (BMC Bioinform., 2010)

EPEPT: A web service for enhanced P-value estimation in permutation tests. - Theo A. Knijnenburg; Jake Lin; Hector Rovira; John Boyle; Ilya Shmulevich (BMC Bioinform., 2011)

Fastbreak: a tool for analysis and visualization of structural variations in genomic data. - Ryan Bressler; Jake Lin; Andrea Eakin; Thomas Robinson; Richard Kreisberg; Hector Rovira; Theo A. Knijnenburg; John Boyle; Ilya Shmulevich (EURASIP J. Bioinform. Syst. Biol., 2012)