Labs
Lab writeups:
Contents Dilution Practice Lab Practice Dilution practice 1 The stock concentration of a mystery substance (MS) is 5 M. Calculate how to dilute to 100 µM (0.1 mM).
Week 2 Lab: Gel Electrophoresis Art
Planning Notes: i don’t have lambda DNA, but i do have Escherichia coli BL21 genomic DNA and a small collection of various plasmids and PCR products of varying rates. we also have a handful of restriction enzymes but not a lot, and mostly not common ones. i think my strategy is going to be: sketch out a design run a restriction digest on the E. coli genomic DNA to get a bunch of different-sized fragments. doesn’t particularly matter which one i think. run the digest on a gel, and purify out the fragments of the size i want with a Qiagen or NEB kit; note: i am going to have to elute with pretty small volumes to keep them concentrated enough to show up in subsequent gels. run a new gel with the purified fragments based on the design (possibly augmenting with PCR products if desired for brightness/intensity). take photo to show off for whatever reason, neither uploading Genbank files and downloading accession files for the E. coli genomic assembly in Benchling is working for me. i suspect it probably has to do with the size of the files and speed (or lack thereof) of my internet. so i can’t do much in-silico planning and testing. but i think my plan will work without it. it just means i’ll have to do more testing during instead of thinking/planning prior. Lab Prep: Sketch out a design. I found a photo of the Portland skyline with Mt. Hood in the background from the City of Portland’s Instagram. Photo credit: @james.is.jumbled. I traced the lines of primary visual components to get a line art style drawing, and then split it into a grid of 16 columns, for the 16 wells for the largest gel comb I have available. I recreated the gridded line art, scaled to a printout of the 1kb+ gel ladder, to approximate the size DNA fragments I would need in each column.