Attributions
Wet Lab
DiCE In Vivo Team
Draven: Pursued development of a working DiCE system in vivo, utilizing E. coli as a model organism. Responsible for developing a protocol to transfect bacterial cells with mRNA, testing for the Qβ replicative mechanism, and creation of in-vivo vector constructs.
Conrad: Responsible for the construction of DNA fragments essential for testing for evolution in vivo.
DiCE In Vitro Team
Ayush: Created the components required for cell-free, constructed and designed plasmid vectors, and worked on experimental design.
Alec: Responsible for construct design and creation and performed various assays to test the evolutionary process in vitro. Additionally pursued several nonpublished avenues for optimization of the DiCE system.
PREDCEL+ Team
Alec: Alec: Responsible for cloning of the constructs and setting up the PADE system.
AcrIIA4 Team
Angelynn: Participated in the High School Summer Internship Program and created a vidoe, illustrating the DiCE concept and dynamics.
Irene:Participated in the High School Summer Internship Program
Elena: Participated in the High School Summer Internship Program
Modeling
Hormazd:Developed a mathematical representation for the modeling of the dynamics and kinetics of Qbeta in the DiCE system, extrapolated results from assays, and characterized the infection reporter mathematically.
Zixian:Developed mathematical models for estimating the mutation spectrum of Qbeta in vivo in the DiCE system and for characterizing infection reporters' role in approximating and tuning evolutionary speed.
Hardware
Alec: Created hardware to automate the PADE protocol, which involved 3D printing, arduino programming, and utilizing various sensor and peltier technologies.
Software
Zixian:Developed all the software components of the 2019 Stanford iGEM webpage by utilizing her computational skills. All webpage code and a large portion of formatting and design was created by Zixian.
Human Practices
Draven:Has reached out to members of the community to sample a diverse array of perspectives on the impact of the DiCE in vivo project. The input provided by professionals were used to help shape various components of the project and help supplement the co-authorship of the Stanford iGEM ’s IP Guidelines.
Haley: Conducted interviews with professionals from various fields to inform the Stanford iGem team on intellectual property rights to help co-author the Stanford iGem’s IP Guidelines.
Community Outreach Team
Draven:Organized interviews to evaluate, analyze, and use the perspectives of a diverse array of professionals and community members on our project’s impact.
Alec:Participated in the Andrew Hills High School outreach event
Zixian:Reached out to Namrata Anand to consult her advice in rational protein design, and participated in the Andrew Hills High School outreach event
Patrick Almhjell (Arnold Lab): Was interviewed to provide insight on the potential impact of our system, ethical concerns, and his understanding of intellectual property rights.
Megan Palmer (CISAC Senior Research Scholar):As a senior research scholar at the Center for International Security and Cooperation as well as the previous director of Human Practices, Dr. Palmer offered wisdom on the subject of human practices and project impact.
Namrata Anand (Possu Huang Lab): As a Ph.D. candidate in bioengineering (4th year) conducting research on deep learning for protein design, Namrata informed our team of the impacts and feasibility of rational protein design and computational analyses..
Collaboration
Alec: Organized and coordinated the cooperation with UV Averne’s iGEM team by assisting the team with cell free experimentation.
UV Alverne:Contributed to the collaborative end of the project by providing constructs to the Stanford iGEM team.
Graduate Advising
Josh:Participated closely with the Stanford iGem team throughout all stages of the project from ideation to troubleshooting. Josh’s generous support for the team has allowed the team to overcome hurdles during experimentation and strategize executing the project.
Marie: Mentored the iGem team for experimental design, especially for the AcrIIA4 component of the project. Apart from attending presentations and weekly meetings, Marie provided cell-lines SCR and RR1 for the AcrIIA4 component of the project. Additionally, Marie advised individual members of the team to improve and optimize experiments and offer suggestions during troubleshooting processes.
Muni: Provided mentorship in terms of the anti-CRISPR protein AcrIIA4 and early biocomputational work, spearheaded by Sunnie, that had to unfortunately be discontinued. Muni continued to show support by attending presentations and offering his insight on the progress and biological components of our project.