Office location and address
M.S. Computer Science, Virginia Tech, 2007
Ph.D. Computer Science, Virginia Tech, 2017
Recently I was Principal Investigator for a Functional Genomic and Computational Assessment of Threats (FunGCAT) team, an IARPA project, where I led a team of over 60 individuals to develop analysis tools to screen nucleotide synthesis requests. As PI of this project I oversaw creating novel methods for organism prediction, threat assessment, and functional prediction using a number of deep learning methods. Previous projects include developments in genome annotation, organism prediction, RNA-Seq analysis, comparative genomics, algorithmics, modeling genomes as graphs, and graph theory. Since 2011 I have worked with the PATRIC project during which time I created core concepts of the current resource to facilitate comparative genomics research as well as popular tools for processing research data. For NIAID I created RNA-Rocket, a popular tool, with thousands of registered users, for processing RNA-Seq data related to infectious disease whose technology has been integrated into the Bioinformatic Resource Centers. I recently created the concept of pan-synteny graphs, a new graph-based model for quickly comparing thousands of bacterial genomes. As a scientist in the Network Systems Science and Advanced Computing group, I work with a trans-disciplinary team of experts in modeling different levels of infectious disease spread for medical and defense research. I have research expertise in developing and applying algorithms for processing biological data for insight and hypothesis testing using comparative genomics, experimental analysis, machine learning, data mining, and graph modeling.