Artificial intelligence, pattern recognition, computational complexity, analysis of algorithms

* Techniques for visualizing large, complex, and uncertain networks.

Transfer RNA and RNase P gene finding, transcriptional analysis in archaea, high-throughput RNA sequencing analysis in microbes, and UCSC microbial genome browser development

Software Engineering

Service Science, Operations Management, Modelling and Simulation of business processes

Database theory, finite model theory

Real-Time Systems, Operating Systems, Parallel and Distributed Systems.

Adobe technology, digital publishing, program verification

CMOS analog/RF integrated circuits, low-power VLSI and mixed-signal/mixed-technology integrated systems, nanoelectronic memristors and memristive circuits & systems

Computational functional genomics, machine learning

I'm interested in developing integrative bioinformatic methods for current and emerging biological questions. In previous work, I developed a novel, biclustering method to identify co-functional modules of proteins that are conserved between organisms. In my current work, I am seeking to extend the PARADIGM pathway analysis algorithm to incorporate additional data types and extend it to non-human organisms. In future work, I hope to develop a multi-species version of PARADIGM as well.