Team:Berkeley Software/Team

The Team



T he 2009 University of California Berkeley Software team was composed of seven undergraduate students, one postdoctoral instructor (Douglas Densmore) and one faculty advisor (J.Christopher Anderson). The team was made up of both bioengineering as well as electrical engineering and computer science students. The participants were selected from over 100 applicants which applied in the Spring of 2009 to be members of the team. Students were selected based on GPA, related research experience, performance on a series of tutorials, letters of recommendation, and short interview sessions.

The team was broken into four projects: Bing Xia focused on revamping the general software infrastructure. Joanna Chen and Richard Mar developed Spectacles. Thien Nguyen and Nina Revko examined assembly protocols and workflow design. Finally, Lesia Bilitchenko and Adam Liu created Eugene.

The team was funded by the National Science Foundation, the Synthetic Biology Engineering Research Center, qb3, the Coalition to Diversify Computing, and the Center for Hybrid Embedded Systems Software. We want to thank all our sponsors and are excited to present our work at the jamboree!

Other Attribution and Thanks
We would like the thank the following people for their help coding, feedback on Clotho, help testing the software, and infrastructure support. All of these folks were physically present at UC Berkeley this summer and we expect to continue collaborating with them in the future.


 * Jenn Brophy - UC Berkeley 2009 "wet team"
 * Sherine Cheung - UC Berkeley 2009 "wet team"
 * Tim Hsiau - UC Berkeley graduate student
 * Josh Kittleson - UC Berkeley graduate student
 * Armen Khodaverdian - UC Berkeley undergraduate student
 * Nade Sritanyaratana - University of Wisconsin graduate student (former iGEM 2008 UC Berkeley tools team member)
 * Evan Yang - UC Berkeley undergraduate student

Also we would like to thank a couple folks which helped with the design of this website and the artistic supporting material developed around our project.


 * Christine Tsin - created much of the beautiful artwork on these pages.
 * Marlee Tichenor - helped assemble the videos on this site.

We collaborated with a number of individuals without whom our project would not be nearly as rich:


 * The Stanford iGEM team also provided great feedback on Spectacles.
 * Cesar Rodriquez at Stanford was very helpful in initial discussions regarding Eugene.
 * Emma Weeding from the University of Minnesota helped us work to integrate Eugene with SynBioSS.

We also want to thank Kate Spohr for all her support regarding logistic and financial issues and naturally J.Christopher Anderson for his mentorship and constant support.