Homework
Weekly homework submissions:
Week 1 HW: Principles and Practices
Governance of AI-Driven Biological Design 1. Biological Engineering Application or Tool Description As the core idea of my project, I would like to develop a concept that has been under discussion in my laboratory for some time: a computational platform for the de novo design of peptide and protein ligands capable of inhibiting essential microbial processes, such as translation, with the goal of suppressing or controlling microbial growth.
Homework Questions & Answers Homework Questions from Professor Jacobson Questions Nature’s machinery for copying DNA is called polymerase. What is the error rate of polymerase? How does this compare to the length of the human genome? How does biology deal with that discrepancy?
Week 2 — DNA Read, Write, & Edit
Part 1: Benchling & In-silico Gel Art Simulate Restriction Enzyme Digestion with the following Enzymes: Part 3: DNA Design Challenge 3.1. Choose your protein. In recitation, we discussed that you will pick a protein for your homework that you find interesting. Which protein have you chosen and why? Using one of the tools described in recitation (NCBI, UniProt, google), obtain the protein sequence for the protein you chose.
- Article / case study: Automation at Adaptyv Bio and protein binder design competitions A prominent example of the use of automation in biology is the work carried out by Adaptyv Bio, a company specialized in laboratory automation and the integration of artificial intelligence for protein design and validation. In particular, Adaptyv Bio organized international protein design competitions, such as the Protein Binder Competition, in which thousands of computationally generated designs were experimentally tested using fully automated workflows.