
Scientific Manager, Research Computing at Genentech
San Francisco Bay Area

Scientific Manager, Research Computing at Genentech
San Francisco Bay Area
I have had both scientific and operational responsibilities at Genentech. At Genentech, I have been involved with large-scale mining efforts to identify remote members of therapeutically relevant protein families and large-scale integration and mining of diverse types of data.
Since 2004, I have managed Research Computing, which means that I am responsible for assessing and prioritiizing Research's computing needs, establishing long-term computer strategy, and overseeing the Research IT budget.
I enjoy technology and developing computational solutions to large-scale data-driven biological problems. I seek to apply my skills to increasingly complex challenges, and to do so in a collaborative environment in which I have significant responsibility to establish research and computing directions.
I have experience with project,.personnel, and budget management.
(Public Company; 10,001 or more employees; DNA; Biotechnology industry)
December 2007 — Present (1 year 8 months)
I am responsible for managing Research's computing infrastructure, establishing long-term computing strategy and overseeing the Research IT budget. I serve on Genentech's Technology Council IT steering committee. (Although my title changed officially in December 2007, this is a role I've held since 2004.)
(Public Company; 5001-10,000 employees; DNA; Biotechnology industry)
June 2001 — December 2007 (6 years 7 months)
I am actively engaged in target discovery using advanced sequence- and structure prediction methods. I have joint appointments in the Bioinformatics and Protein Engineering departments. I also chair the Research Computer Architecture and Operations group which oversees hetergeneous clusters of computers for Bioinformatics and ~700 people within Research.
(Public Company; 10,001 or more employees; IBM; Information Technology and Services industry)
January 1999 — May 2001 (2 years 5 months)
I applied pattern discovery techniques to the fully automatic identification of patterns in protein sequences, and showed that these coorespond well with known functional sites (as measured by PROSITE motifs) and in some cases with conserved protein structure.
(Educational Institution; 5001-10,000 employees; Higher Education industry)
August 1991 — December 1998 (7 years 5 months)
I was simultaneously admitted to the Molecular Biophysics Ph.D. and Computer Science M.S. programs, and undertook these concurrently. In 1994, I completed a M.S. thesis with David States in which I implemented a Bayesian peak picking model for ABI automated sequencer data. In 1998, I completed a Ph.D. in Molecular Biophysics with Jay Ponder in which I developed a "smoothable" potential function based on AMBER/OPLSAA, investigated the theoretical connections to simulated annealing, and applied the methodology to small molecule structure predictions and molecular docking predictions.
(Non-Profit; Biotechnology industry)
June 1988 — June 1990 (2 years 1 month)
Undergraduate research assistant, assisted with mapping several regions of human chromosome 11 and identification of a novel tandem repeat.
(Self-Employed; Myself Only; Computer Software industry)
June 1987 — June 1990 (3 years 1 month)
Freelance computer programming for a local hospital. Initial deployment was during the summer of 1997; subsequent work consisted of updates and improvements over the next 3 years.
PhD , Molecular Biophysics , 1991 — 1998
MS , Computer Science , 1991 — 1994
concurrent with Molecular Biophysics PhD program
BA , Molecular Biology , 1986 — 1990
Computational biology / bioinformatics - structure prediction - distant homolog detection - feature-based mining (See http://unison-db.org/) - functional analysis of genomic/somatic variations Computers - Perl - PostgreSQL - Security Other - Private pilot since 1990, instrument rated, >500 hours - Go (http://en.wikipedia.org/wiki/Go_(board_game))
ISCB (International Society for Computational Biology)
AAAS (American Assocation for the Advancement of Science)