Homework
Weekly homework submissions:
Week 1 HW: Principles and Practices
Class Assignment Describe a biological engineering application or tool you want to develop and why. Aplication title: De novo design of proteins binders for neutralizing Bothrops venom toxins Antivenoms are a mix of immunoglobulins produced traditionally by the hyperimmunization of large animals with crude venom obtained from clinically-relevant snakes (Ratanabangkoon, K., 2023). Novel alternatives have emerged to neutralize venom toxins without the use of animals. For example, Torres and collaborators (2025) designed proteins with high affinity for important regions of cytotoxins from the 3FTx family. These proteins showed great neutralizating capacity in vitro and great protective capacity in vivo .
Week 2 HW: DNA Read, Write & Edit
Part 1: Benchling & In-silico Gel Art Lambda Sequence: Sequence from E.coli I cl857 S7 lambda bateriophage (Daniels, et al., 1983) available at New England Biolabs (N3011) A digest simulation was performed using the lambda sequence and 7 different restriction enzyme (EcoRI, HindIII, BamHI, KpnI, EcoRV, SacI, and SalI). The range of fragments obtained from this simulation varies depending on the enzyme used.
Opentrons Artwork: Gel Designing Design: Snake Trimeresurus puniceus Inspired from a snake photo taken in the Oswaldo Meneses serpentarium, Lima, Peru. Art created Donovan’s Automation art interface Python Script Design Opentrons script was created following the instructions and ideas offered by the HTGAA Opentrons Colab. To create the script first I created a pseudocode with the idea of how the robot will work