Introduction:
I have recently accepted an offer to work as a bioinformatics specialist in the laboratory of Professor Allan Balmain at the UCSF Comprehensive Cancer Center. My work there will focus on developing methods for gene-gene network construction and analysis.
My background combines academic experience in microarray and sequence analysis with industry experience in data-driven software development. This May I completed a Masters degree in Biomedical Informatics at Columbia University with honors, applying machine learning techniques to analyze transcriptional regulation of DNA sequences. I have a combination of experience with high-throughput genomic analysis and practical software engineering in several domains. I have a strong interest in molecular biology, especially gene regulation and alternate splicing.
Previous work and study
In the summer of 2006 I spent a month working with Dr. Tom Lietman at the Proctor Foundation (UCSF) on continuous stochastic modeling. Dr. Lietman is an ophthalmic epidemiologist, and we were trying to predict the outcome of treating antibiotic-resistant bacteria using various protocols. Ideally we'll find predicted results that match his group's emperical data and be able to make some recommendations about how to minimize the growth of antibiotic-resistant bacteria.
My research topic at Columbia was building models of transcriptional regulation using large-margin machine learning tools. I was a research assistant to Dr. Christina Leslie in the Center for Computational Learning Systems at Columbia. We applied boosting to microarray data and sequence data from yeast and Drosophila to build models of conditional gene regulation.
Before he departed Columbia for Vancouver, I did a rotation with professor Paul Pavlidis in the Gene Expression Informatics Group in the Columbia Genome Center. Our work involved designing and building a system to integrate many genomic data sources, including public databases and experimental Microarray data.
My professional experience before 2004 was in building high-volume web-based financial data and publishing systems. I have have been a software developer at Marketwatch.com in Minneapolis and at Orrick, Herrington & Sutcliffe in San Francisco. I received my bachelor's degree magna cum laude in Computer Science from Carleton College in 1998.
Outside of work
My extra-curricular interests include cooking Thai food, walking in San Francisco's neighborhoods, and hiking in Northern California. I've been married for six years; my wife Sarah teaches ESL and is writing a novel for Penguin.
Notes from a talk I gave on MEDUSA, March 2006
Contact Information:
| david.a.quigley at gmail.com. | |
| Cell Phone | (646) 285-3624 |
| Work Address | UCSF Comprehensive Cancer Center Box 0875 San Francisco, CA 94143-0875 |