Homework
Class Assignments:
Week 1 HW: Principles and Practices
Week 1: Principles and Practices Class Assignment 1. Application or Tool to Develop & Why Application: “The Bio-Puzzle” – A hardware-agnostic DNA assembly toolkit using split-protein reporters (e.g., Split-GFP) as physical “checksums” for long-sequence construction.
Week 2 HW: DNA Read, Write, and Edit
Week 2: DNA Read, Write, and Edit Part 1 & 2: Gel Art Describe your process of creating Gel Art using Benchling and restriction digests.
Week 3: Lab Automation Lab Automation assignment This week, we explored lab automation and its applications in synthetic biology.
Week 4: Protein Design I This week, we explored the fundamentals of protein structure, visualization, and the latest ML-based tools for design and analysis.
Week 5: Protein Design II This week focuses on designing and evaluating therapeutic peptides for SOD1 mutant A4V, a key player in familial Amyotrophic Lateral Sclerosis (ALS).
Week 6: DNA Assembly This week explores the experimental design and in-silico simulation of constructing genetic circuits. The first section details standard molecular cloning techniques like PCR and Assembly, whilst the second section documents my modeling results in Asimov Kernel.
Week 7 HW: IANNs & Fungal Materials
Week 7: IANNs & Fungal Materials This week covers two advanced synthetic biology paradigms: Intracellular Artificial Neural Networks (IANNs) for complex logical decision making, and the engineering of macro-scale Fungal Materials.