Jason Zwolak

Custom Scientific Software Developer InSilica Labs 300 W. Silverleaf St. Greer, SC 29650 Email: jzwolak@gmail.com Tel: 540-239-6444 Web Pages: www.insilicalabs.com
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Previous Position at VT: PhD student, 2001-04; Postdoc, 2005-08.

History

Jason studied under John Tyson and Layne T. Watson at Virginia Tech for his masters and PhD in computer science as specifically applied to computational biology. He followed this work with modelling in frog egg extracts as a post doc under the guidance of John Tyson. In 2008, he finished his work at Virginia Tech and went to start his own business building custom applications and software for scientific computing. He continues to work on projects for the Tyson lab as well as other labs around the world.

Areas of Interest

Jason has interest and experience with parallel computing, scientific computing, high performance computing, human computer interaction, web applications, and desktop applications. He particularly likes to put these skills and tools together to make computers work for people and help them to get their job done.

In the area of parallel computing, Jason has experience with Beowulf clusters, MPI, CUDA, and GPU computing. He also has experience taking the untaped power of modern multi-core processers and GPUs on desktop computers and putting them to use for the scientist.

He has experience writing applications in Qt, Java Swing, and Gtk+ toolkits for graphical user interfaces. He has used Perl, Ruby, Python, C, Java, and Fortran for the underlying power behind the user interface. Welding the best language for the need at hand to speed application development, to speed application performance, and to lower development costs.

Jason has developed the software Parameter Estimation Toolkit (PET) which has a graphical interface that allows users to twiddle and to find the optimal parameter set for a molecular model that fits the experimental data.

Education

Ph.D. 2004 Virginia Tech, Computer Science.
M.S. 2001 Virginia Tech, Computer Science.
B.S. 1999 Virginia Tech, Computer Engineering.

Professional Experience

2008-present Owner of InSilica Labs and custom software developer.

Publications

Shaffer, C.A., Zwolak, J.W., Randhawa, R., and Tyson, J.J. (2009). Modeling molecular regulatory networks with JigCell and PET. Methods Mol. Biol. Syst. Biol. 500: 81-111.
[Abstract] [Article]
Zwolak, J.W., Adjerid, N., Bagci, E.Z., Tyson, J.J., and Sible, J.C. (2009). A quantitative model of the effect of unreplicated DNA on cell cycle progression in frog egg extracts. J. Theor. Biol. 260: 110-120.
[Abstract] [Article]
Zwolak, J.W., Tyson, J.J. and Watson, L.T. (2005). Parameter estimation for a mathematical model of the cell cycle in frog eggs. J. Comp. Biol. 12:48-63.
[Abstract] [Article]
Zwolak, J. W., Tyson, J. J. and Watson, L. T. (2005). Globally optimized parameters for a model of mitotic control in frog egg extracts. IEE Syst Biol. (Stevenage) 152:81-92.
[Abstract]
Allen, N.A., Calzone, L., Chen, K.C., Ciliberto, A., Ramakrishnan, N., Shaffer, C.A., Sible, J.C., Tyson, J.J., Vass, M.T., Watson, L.T. and Zwolak, J.W. (2003). Modeling regulatory networks at Virginia Tech. OMICS 7:285-299.
[Abstract] [Article]

Personal

Jason loves to dance, play music, spend time with his dog, and spend time in community with his friends. He teaches dance part time and has a dance website at www.drswing.com. Jason is single and resides in Portland, OR.