Projects

Final projects:

• Individual Final Project

  AI-guided closed-loop design of complex biological constructs using foundation model and (cell-free systems) SECTION 1: ABSTRACT Significance. Designing biological constructs that perform reliably remains a major bottleneck in synthetic biology. Enzymes involved in C1 metabolism, such as those mediating methane-to-methanol conversion, are notoriously difficult to express and optimize, yet methane and other C1 feedstocks represent an abundant but underutilized carbon source with applications ranging from sustainable chemical production to carbon sequestration. Today, plasmid design still relies heavily on historical use, standard parts, and intuition (“vibes”), with optimization tools that are scattered and focused primarily on the coding sequence rather than the surrounding regulatory architecture.

  
• Group Final Project

  Part D: Group Brainstorm on Bacteriophage Engineering Due to later start of our Node, we had limited time to find groups and set up a meeting, therefore the drafts of our group are mainly individual, and not discussed Goal We target two complementary objectives: (A) Increased stability of the L protein, specifically engineering DnaJ-independent variants that fold correctly without host chaperone assistance; and (B) Higher toxicity / faster lysis, by optimizing the transmembrane oligomerization interface to accelerate pore formation. Goal A is prerequisite to Goal B: a stable, chaperone-independent L is resistant to the most documented E. coli escape mechanism (DnaJ P330Q mutation), and faster lysis narrows the window for resistance acquisition.