Homework
Weekly homework submissions:
Week 1 HW: Principles and Practices
Assignments: Class 1 Assignment Question 1 I propose a high-throughput microscopy tool to estimate intracellular PHA accumulation from granule count and size. Current standart quantification methods are slow, labor-intensive, and often require hazardous solvent-based extraction. By pairing PHA staining (e.g., Sudan Black B or Nile Red A) with automated imaging and machine-learning (ML) image segmentation, this approach could rapidly screen large libraries of environmental isolates and recombinant strains for high PHA producers.
Week 2: DNA Read, Write, & Edit
Homework Part 1: Benchling & In-silico Gel Art Opened https://benchling.com/ and signed up. Found the Lambda sequence from https://www.neb.com/en/-/media/nebus/page-images/tools-and-resources/interactive-tools/dna-sequences-and-maps/text-documents/lambdafsa.txt?rev=c0c6669b9bd340ddb674ebfd9d55c691&hash=B4188C171E5A42A1CF6FD257F98B97A1 and copied the sequence (without the header). Pasted this sequence into Benchling through “Create” > “DNA / RNA Sequence” > “New DNA / RNA Sequence”. Then I just pasted the sequence in the “Bases” field, titled it “Lambda,” and selected the topology as “Linear.”
Python Script for Opentrons Artwork Here’s my HTGAA 2026 Opentrons Art Python Script Submission. The artistic design I created using the GUI is available here. I heavily used the “Example 7 Microbial Earth” by Dominika Wawrzyniak, using pixels loaded from an external resource (a CSV file hosted on my GitHub page). I used Dominika’s well documented Notion page from HTGAA21 to understand the code and replicate it for my case. I used Gemini assistance only to debug minor typos and syntax errors, and to identify which packages to import to execute the code.