I am a PhD student in the Department of Computer
Science at the University of Massachusetts at
Amherst. My advisor is Ileana
Streinu and I am affiliated with the Linkage
Laboratory. I have also worked at length with
Oliver Brock, along with Frank Klassner and
Lillian (Boots) Cassel at Villanova.
My current research is interdisciplinary at the
intersection of computer science, biology, and
chemistry. I use established graph algorithms to
analyze and predict the rigid regions of molecules and
to infer important structural properties of disease
causing mutant proteins. A longer-term goal is to make
progress towards large scale validation of rigidity
analysis of molecules.
I co-develop (with Naomi Fox) the KINARI software,
which uses an efficient graph-based algorithm to
predict the flexible and rigid regions of
biomolecules. Several of my contributions are KINARI-Mutagen, KINARI-CurationWeb, as well as
tools for generating protein biological assemblies and
crystals from Protein Data Bank files that
contain only the asymmetric unit.