Recent news:

My Ph.D. work was selected for a Doctoral Showcase talk at Supercomputing 2012!

I am invited to give a talk at Truman State University in October!

Our group is now a part of the BIGDATA program!

Submissions are now open for the IEEE Intl. Workshop on High Performance Computational Biology (HiCOMB 2013) in concurrence with IPDPS 2013

About me:

I am NCI/CCSB (Center for Cancer Systems Biology) postdoctoral fellow at Sage Bionetworks - a small non-profit affiliate of the Fred Hutchinson Cancer Research Center in Seattle, WA. I develop computational models to address open questions in cancer systems biology that are of interest to our collaborators here at the FHCRC and outside. I am especially interested in applications of probabilistic graphical models for data integration and driver gene predictions. In addition, I am interested in identifying large-scale problems amendable to non-trivial parallelization.

Previously I was a graduate student / research assistant in the High Performance Computational Biology Group with Dr. Srinivas Aluru at Iowa State University. I received my Ph.D. in Bioinformatics and Computational Biology in 2012 under the supervision of Dr. Srinivas Aluru and my fantastic co-major advisor Dr. Patrick Schnable.

My thesis focuses on parallel algorithms for Bayesian network structure learning, which I apply to gene expression data to model small and large-scale (whole-genome) gene networks in model plant organisms like Arabidopsis and (soon) maize.

During my internship with Chris Bishop (and his fantastic team!) at MSR-Cambridge UK, I did some preliminary work in applying PGMs to clinical data. While there, I investigated automated modeling of causal effects in an early-life environmental intervention study in childhood asthma and allergies (Manchester Asthma and Allergy Study). I used Infer.NET. I also did some preliminary work in a genome-wide association study for genetic-environmental interactions.

Contact:

1100 Fairview Ave North, M1-C108
Seattle, WA 98109
Tel: 206-667-6013
Fax: 206-667-2062
firstname dot lastname at sagebase dot org